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This page was generated on 2025-10-24 12:06 -0400 (Fri, 24 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4898
lconwaymacOS 12.7.6 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4688
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4634
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4658
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 210/2359HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.15.1  (landing page)
Pierrick Roger
Snapshot Date: 2025-10-23 14:17 -0400 (Thu, 23 Oct 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: devel
git_last_commit: b5e26aa
git_last_commit_date: 2025-06-24 10:11:00 -0400 (Tue, 24 Jun 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.6 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    ERROR  skipped

CHECK results for biodbChebi on 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: 2025-10-23 18:46:35 -0400 (Thu, 23 Oct 2025)
EndedAt: 2025-10-23 18:47:03 -0400 (Thu, 23 Oct 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 (2025-09-10 r88807)
* using platform: aarch64-apple-darwin20
* R was compiled by
    Apple clang version 16.0.0 (clang-1600.0.26.6)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Ventura 13.7.7
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.15.1’
* 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 (2025-09-10 r88807) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-10-23 18:46:54.831][biodb::testContext]
biodb.INFO [2025-10-23 18:46:54.833][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-23 18:46:54.833][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-10-23 18:46:54.833][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-23 18:46:54.834][biodb::testContext]
biodb.INFO [2025-10-23 18:46:54.836][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-23 18:46:54.837][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-23 18:46:54.840][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 18:46:54.841][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-23 18:46:54.841][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-23 18:46:54.841][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.842][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-23 18:46:54.848][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-23 18:46:54.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.849][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-23 18:46:54.850][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-23 18:46:54.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.851][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-23 18:46:54.851][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-23 18:46:54.851][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-23 18:46:54.852][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.852][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-23 18:46:54.853][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-23 18:46:54.853][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-23 18:46:54.853][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.854][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-23 18:46:54.854][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-23 18:46:54.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.855][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-23 18:46:54.856][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-23 18:46:54.856][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-23 18:46:54.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.857][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-23 18:46:54.857][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-23 18:46:54.858][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.859][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-23 18:46:54.864][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-23 18:46:54.864][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-23 18:46:54.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.865][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-23 18:46:54.866][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-23 18:46:54.866][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-23 18:46:54.866][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-23 18:46:54.867][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-23 18:46:54.867][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-23 18:46:54.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.868][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-23 18:46:54.868][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-23 18:46:54.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.869][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-23 18:46:54.869][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-23 18:46:54.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.870][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[2025-10-23 18:46:54.870][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-23 18:46:54.871][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-23 18:46:54.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.872][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-23 18:46:54.872][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-23 18:46:54.872][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-23 18:46:54.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.873][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-23 18:46:54.873][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-23 18:46:54.880][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-23 18:46:54.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.881][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-23 18:46:54.881][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-23 18:46:54.882][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-23 18:46:54.882][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.884][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-23 18:46:54.895][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:54.900][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-23 18:46:54.900][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:54.901][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 18:46:54.901][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:54.901][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 18:46:54.901][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:54.902][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 18:46:54.902][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-23 18:46:54.902][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 18:46:54.903][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:54.903][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-23 18:46:54.903][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 18:46:54.903][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:54.904][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:54.904][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 18:46:54.904][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 18:46:54.904][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 18:46:54.904][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-23 18:46:54.904][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-23 18:46:54.904][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 18:46:54.904][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:46:54.905][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:46:54.905][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 18:46:54.905][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:46:54.905][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:46:54.906][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 18:46:54.906][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:54.906][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 18:46:54.906][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 18:46:54.907][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:54.907][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:54.907][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-23 18:46:54.908][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:54.908][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-23 18:46:54.908][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:54.909][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 18:46:54.909][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:54.909][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 18:46:54.909][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:54.910][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 18:46:54.910][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-23 18:46:54.910][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 18:46:54.911][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:54.911][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-23 18:46:54.911][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 18:46:54.911][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:54.912][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:54.912][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 18:46:54.912][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 18:46:54.912][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 18:46:54.912][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-23 18:46:54.912][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-23 18:46:54.912][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 18:46:54.912][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:46:54.913][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:46:54.913][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 18:46:54.913][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:46:54.913][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:46:54.914][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 18:46:54.914][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:54.914][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 18:46:54.914][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 18:46:54.915][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:54.915][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:54.915][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-23 18:46:54.916][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:54.916][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-23 18:46:54.916][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:54.917][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 18:46:54.917][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:54.917][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 18:46:54.917][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:54.918][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 18:46:54.918][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-23 18:46:54.918][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 18:46:54.918][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:54.919][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-23 18:46:54.919][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 18:46:54.922][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:54.922][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:54.922][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:54.923][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 18:46:54.923][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:46:54.923][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:46:54.923][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 18:46:54.924][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:46:54.924][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:46:54.924][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 18:46:54.924][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:54.925][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 18:46:54.925][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 18:46:54.925][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:54.925][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:54.926][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-23 18:46:54.926][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:54.927][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-23 18:46:54.927][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:54.927][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 18:46:54.927][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:54.928][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 18:46:54.928][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:54.928][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 18:46:54.928][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-23 18:46:54.929][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 18:46:54.929][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:54.929][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-23 18:46:54.929][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 18:46:54.930][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:54.930][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:54.930][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:54.930][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 18:46:54.931][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:46:54.931][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:46:54.931][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 18:46:54.931][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:46:54.932][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:46:54.932][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 18:46:54.932][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:54.932][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 18:46:54.933][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 18:46:54.933][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:54.933][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:54.935][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 18:46:54.935][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:54.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:54.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:54.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:54.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.938][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:54.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:54.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:54.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:54.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:54.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:54.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:54.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:54.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:54.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:54.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.944][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:54.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:54.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.944][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.DEBUG[2025-10-23 18:46:54.945][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:54.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:54.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.946][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:54.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:54.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:54.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:54.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:54.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:54.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.949][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.DEBUG[2025-10-23 18:46:54.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:54.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:54.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.950][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:54.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:54.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:54.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:54.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:54.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:54.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.954][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-23 18:46:54.956][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-23 18:46:54.956][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-23 18:46:54.957][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-23 18:46:54.957][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-23 18:46:54.957][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-23 18:46:54.958][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-23 18:46:54.958][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-23 18:46:54.959][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-23 18:46:54.959][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-23 18:46:54.959][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-23 18:46:54.960][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-23 18:46:54.960][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-23 18:46:54.960][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-23 18:46:54.961][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-23 18:46:54.961][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-23 18:46:54.961][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-23 18:46:54.962][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-23 18:46:54.962][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-23 18:46:54.963][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-23 18:46:54.963][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-23 18:46:54.963][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-23 18:46:54.964][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-23 18:46:54.964][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-23 18:46:54.965][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-23 18:46:54.965][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-23 18:46:54.965][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-23 18:46:54.966][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-23 18:46:54.966][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-23 18:46:54.966][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-23 18:46:54.967][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-23 18:46:54.967][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-23 18:46:54.968][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-23 18:46:54.968][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-23 18:46:54.971][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-23 18:46:54.971][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-23 18:46:54.972][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-23 18:46:54.972][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-23 18:46:54.972][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-23 18:46:54.973][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-23 18:46:54.973][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-23 18:46:54.973][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-23 18:46:54.974][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-23 18:46:54.974][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-23 18:46:54.975][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-23 18:46:54.975][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-23 18:46:54.975][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-23 18:46:54.976][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-23 18:46:54.976][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-23 18:46:54.977][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-23 18:46:54.977][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-23 18:46:54.977][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-23 18:46:54.978][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-23 18:46:54.978][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-23 18:46:54.978][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-23 18:46:54.979][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-23 18:46:54.979][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-23 18:46:54.979][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-23 18:46:54.980][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-23 18:46:54.980][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-23 18:46:54.981][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-23 18:46:54.981][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-23 18:46:54.981][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-23 18:46:54.982][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-23 18:46:54.982][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-23 18:46:54.982][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-23 18:46:54.983][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-23 18:46:54.983][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-23 18:46:54.983][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-23 18:46:54.984][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-23 18:46:54.984][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-23 18:46:54.985][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-23 18:46:54.985][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-23 18:46:54.985][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-23 18:46:54.986][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-23 18:46:54.986][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-23 18:46:54.986][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-23 18:46:54.987][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-23 18:46:54.987][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-23 18:46:54.987][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-23 18:46:54.988][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-23 18:46:54.988][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-23 18:46:54.989][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-23 18:46:54.990][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-23 18:46:54.991][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-23 18:46:54.992][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 18:46:54.993][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:54.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:54.993][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:54.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:54.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:54.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:54.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.996][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.DEBUG[2025-10-23 18:46:54.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:54.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:54.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:54.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:54.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:54.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:54.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:54.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:54.999][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:54.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:54.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:54.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:55.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:55.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:55.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:55.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:55.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:55.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:55.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:55.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:55.001][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:55.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:55.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:55.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:55.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:55.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:55.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:55.003][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:55.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:55.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:55.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:55.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:55.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:55.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:55.005][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:55.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:55.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:55.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:55.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:55.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:55.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:55.006][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:55.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:55.007][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:55.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:55.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:55.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:55.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:55.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:55.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:55.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:55.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:55.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:55.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:55.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:55.009][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:55.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:55.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:55.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:55.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:55.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:55.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:55.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:55.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:55.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:55.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:55.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:55.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:55.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:55.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:55.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:55.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:55.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:55.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:55.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:55.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:55.014][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:55.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:55.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:55.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:55.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:55.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:55.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:55.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:55.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:55.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:55.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:55.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:55.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:55.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:55.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:55.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:55.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:55.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:55.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:55.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:55.022][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.DEBUG[2025-10-23 18:46:55.022][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:55.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:55.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:55.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:55.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:55.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:55.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:55.024][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-23 18:46:55.027][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-23 18:46:55.028][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:55.028][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-23 18:46:55.028][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:55.029][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 18:46:55.029][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:55.029][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 18:46:55.030][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:55.030][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-23 18:46:55.030][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-23 18:46:55.030][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 18:46:55.031][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:55.031][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-23 18:46:55.031][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 18:46:55.031][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-23 18:46:55.031][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-23 18:46:55.031][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-23 18:46:55.031][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-23 18:46:55.031][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-23 18:46:55.031][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-23 18:46:55.031][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-23 18:46:55.031][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-23 18:46:55.031][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-23 18:46:55.031][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-23 18:46:55.031][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-23 18:46:55.032][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:55.032][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 18:46:55.032][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 18:46:55.032][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 18:46:55.032][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-23 18:46:55.033][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:46:55.033][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:46:55.033][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 18:46:55.033][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:46:55.034][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:46:55.034][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 18:46:55.034][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-23 18:46:55.034][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-23 18:46:55.034][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 18:46:55.035][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 18:46:55.035][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:55.035][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-23 18:46:55.035][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-23 18:46:55.037][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-23 18:46:55.038][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-23 18:46:55.038][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-23 18:46:55.038][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-23 18:46:55.039][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-23 18:46:55.039][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-23 18:46:55.049][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-23 18:46:55.057][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-23 18:46:55.061][biodb::testThat]
biodb.INFO [2025-10-23 18:46:55.061][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-10-23 18:46:55.061][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 18:46:55.062][biodb::testThat]
biodb.TRACE[2025-10-23 18:46:55.063][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-10-23 18:46:55.064][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 18:46:55.066][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 18:46:55.069][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:55.069][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:55.070][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:55.075][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:55.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:55.076][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:55.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:55.080][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.080][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.081][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.099][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:55.099][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:55.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.100][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.109][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:55.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:55.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.110][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:55.111][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:55.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.111][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.112][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:55.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:55.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.113][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:55.113][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:55.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.113][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.114][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:55.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:55.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.115][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.115][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.115][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.116][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.116][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.117][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:55.117][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:55.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.118][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.118][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:55.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:55.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.119][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:55.120][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.120][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.120][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.121][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:55.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.122][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:55.122][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:55.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.123][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.123][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:55.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:55.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.124][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:55.124][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:55.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.125][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.125][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:55.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:55.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.126][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:55.127][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:55.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.127][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.127][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:55.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:55.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.129][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:55.129][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:55.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.129][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.130][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:55.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:55.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.134][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:55.154][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-10-23 18:46:55.155][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:55.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:55.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.157][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:55.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:55.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.165][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.166][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.167][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.169][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.170][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-23 18:46:55.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-23 18:46:55.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.171][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-23 18:46:55.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-23 18:46:55.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.172][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-23 18:46:55.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-23 18:46:55.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.197][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-23 18:46:55.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-23 18:46:55.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.204][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.211][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.214][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.215][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.222][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.224][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.225][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.225][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.225][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.229][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.232][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.233][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.234][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.234][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.234][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.238][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:55.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:55.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.242][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:55.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:55.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.244][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:55.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:55.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.245][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:55.245][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:55.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.246][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.246][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:55.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:55.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.250][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:55.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:55.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.251][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:55.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:55.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.252][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:55.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:55.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.253][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:55.254][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:55.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.254][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.254][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:55.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:55.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.258][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.259][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.260][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.262][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.262][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.262][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.266][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:55.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:55.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:55.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:55.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.270][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:55.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:55.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.271][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:55.271][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:55.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.271][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.272][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:55.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:55.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.275][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:55.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:55.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.277][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:55.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:55.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.278][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:55.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:55.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.279][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:55.279][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:55.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.279][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.280][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:55.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:55.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.283][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-23 18:46:55.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:55.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.287][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-23 18:46:55.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:55.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.288][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-23 18:46:55.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:55.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.289][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-23 18:46:55.290][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:55.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.291][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.292][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-23 18:46:55.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:55.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.295][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:55.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:55.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.297][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:55.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:55.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.298][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:55.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:55.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.299][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:55.299][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:55.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.300][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.300][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:55.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:55.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.304][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:55.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:55.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.305][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:55.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:55.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.306][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:55.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:55.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.307][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:55.307][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:55.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.308][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.308][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:55.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:55.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.312][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.313][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.314][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.315][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.315][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.316][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.316][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.320][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:55.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:55.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.321][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:55.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:55.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.322][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:55.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:55.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.323][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:55.323][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:55.324][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.324][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.324][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:55.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:55.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.331][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.331][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.331][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.332][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.333][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:55.334][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:55.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.334][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.336][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:55.336][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:55.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.336][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.338][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:55.338][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:55.338][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.339][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.340][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.341][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.341][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.343][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:55.344][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:55.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.344][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.346][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.346][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.347][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.348][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:55.349][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:55.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.349][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.351][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-23 18:46:55.351][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:55.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.351][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.353][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:55.353][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:55.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.354][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.355][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:55.355][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:55.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.356][ef$get] fields variable is a list.
biodb.INFO [2025-10-23 18:46:55.359][biodb::testThat]
biodb.INFO [2025-10-23 18:46:55.359][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-10-23 18:46:55.359][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 18:46:55.360][biodb::testThat]
biodb.DEBUG[2025-10-23 18:46:55.364][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-10-23 18:46:55.373][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 18:46:55.374][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 18:46:55.377][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-10-23 18:46:55.377][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 18:46:55.388][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 18:46:55.388][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 18:46:55.389][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:55.389][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:55.389][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:55.391][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:55.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:55.392][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:55.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:55.393][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.393][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.394][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.394][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.401][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:55.401][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:55.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.402][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.402][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:55.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:55.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.403][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:55.403][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:55.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.404][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.404][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:55.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:55.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.405][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:55.406][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:55.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.406][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.406][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:55.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:55.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.408][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.408][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.408][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.409][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.410][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:55.410][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:55.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.411][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.411][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:55.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:55.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.412][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:55.412][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.413][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.413][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:55.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.414][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:55.414][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:55.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.415][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.415][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:55.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:55.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.416][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:55.417][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:55.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.417][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.418][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:55.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:55.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.419][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:55.419][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:55.419][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.419][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.420][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:55.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:55.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.421][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:55.421][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:55.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.422][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.422][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:55.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:55.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.426][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.427][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.429][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:55.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:55.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:55.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:55.437][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-10-23 18:46:55.437][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-10-23 18:46:55.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-10-23 18:46:55.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.438][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-10-23 18:46:55.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-10-23 18:46:55.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.439][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-10-23 18:46:55.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-10-23 18:46:55.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-23 18:46:55.443][biodb::testThat]
biodb.INFO [2025-10-23 18:46:55.444][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-10-23 18:46:55.444][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 18:46:55.444][biodb::testThat]
biodb.TRACE[2025-10-23 18:46:55.445][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:55.446][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:55.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.446][ef$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:55.447][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-10-23 18:46:55.456][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:55.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:55.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.457][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:55.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:55.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.458][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:55.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:55.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:55.460][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-10-23 18:46:55.463][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-23 18:46:55.473][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:55.475][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-23 18:46:55.475][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-23 18:46:55.482][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:55.493][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:55.495][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-23 18:46:55.496][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 18:46:55.496][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-10-23 18:46:55.501][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:55.502][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:55.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.502][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.503][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.503][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.503][ef$get] fields variable is a list.
biodb.INFO [2025-10-23 18:46:55.505][biodb::testThat]
biodb.INFO [2025-10-23 18:46:55.505][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-10-23 18:46:55.505][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 18:46:55.506][biodb::testThat]
biodb.TRACE[2025-10-23 18:46:55.517][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:55.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:55.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.519][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:55.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:55.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.520][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:55.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:55.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 18:46:55.540][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:55.541][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:55.543][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-23 18:46:55.543][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-23 18:46:55.549][biodb::testThat]
biodb.INFO [2025-10-23 18:46:55.549][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-10-23 18:46:55.549][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 18:46:55.550][biodb::testThat]
biodb.TRACE[2025-10-23 18:46:55.556][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:55.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:55.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.557][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:55.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:55.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.561][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.562][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.563][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.564][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.565][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-23 18:46:55.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-23 18:46:55.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.566][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-23 18:46:55.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-23 18:46:55.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.567][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-23 18:46:55.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-23 18:46:55.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.568][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-23 18:46:55.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-23 18:46:55.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.575][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:55.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:55.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.576][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:55.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:55.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.577][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.578][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:55.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:55.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.582][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-23 18:46:55.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-23 18:46:55.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.583][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-23 18:46:55.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-23 18:46:55.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.584][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-23 18:46:55.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-23 18:46:55.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:55.585][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-23 18:46:55.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-23 18:46:55.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:55.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-23 18:46:55.588][biodb::testThat]
biodb.INFO [2025-10-23 18:46:55.588][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-10-23 18:46:55.589][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 18:46:55.589][biodb::testThat]
biodb.INFO [2025-10-23 18:46:55.592][biodb::testThat]
biodb.INFO [2025-10-23 18:46:55.592][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-10-23 18:46:55.592][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 18:46:55.593][biodb::testThat]
biodb.INFO [2025-10-23 18:46:55.595][biodb::testThat]
biodb.INFO [2025-10-23 18:46:55.595][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-10-23 18:46:55.596][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 18:46:55.596][biodb::testThat]
biodb.DEBUG[2025-10-23 18:46:55.597][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-10-23 18:46:56.272][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-10-23 18:46:56.854][biodb::testThat]
biodb.INFO [2025-10-23 18:46:56.854][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-10-23 18:46:56.855][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 18:46:56.855][biodb::testThat]
biodb.TRACE[2025-10-23 18:46:56.857][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:56.857][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:56.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:56.858][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:56.858][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:56.858][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:56.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:56.859][ef$get] fields variable is a list.
biodb.INFO [2025-10-23 18:46:56.860][biodb::testThat]
biodb.INFO [2025-10-23 18:46:56.860][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-10-23 18:46:56.860][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 18:46:56.860][biodb::testThat]
biodb.TRACE[2025-10-23 18:46:56.864][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:56.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:56.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:56.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:56.865][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:56.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:56.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:56.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:56.866][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:56.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:56.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:56.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 18:46:56.905][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:56.906][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:56.907][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-23 18:46:56.907][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-23 18:46:56.935][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:56.936][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:56.937][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-23 18:46:56.938][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-23 18:46:56.943][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-23 18:46:56.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-23 18:46:56.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:56.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:56.945][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:56.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:56.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:56.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:56.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:56.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:56.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:56.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:56.947][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:56.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:56.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:56.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:56.949][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:56.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:56.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:56.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:56.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:56.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:56.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:56.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 18:46:56.953][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:56.954][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:56.956][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-23 18:46:56.956][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 18:46:56.957][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:56.957][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:56.958][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:56.960][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:56.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:56.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:56.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:56.961][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-10-23 18:46:56.978][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 18:46:56.979][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 18:46:56.980][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-10-23 18:46:56.981][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 18:46:56.981][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 18:46:56.982][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 18:46:56.982][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:56.982][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:56.983][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:56.984][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:56.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:56.985][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:56.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:56.986][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:56.986][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:56.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:56.987][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:56.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:56.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:56.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:56.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:56.988][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:56.989][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:56.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:56.989][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:56.989][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:56.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:56.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:56.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:56.991][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:56.991][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:56.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:56.991][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:56.992][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:56.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:56.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:56.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:56.993][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:56.993][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:56.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:56.994][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:56.994][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:56.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:56.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:56.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:56.995][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:56.996][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:56.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:56.996][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:56.996][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:56.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:56.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:56.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:56.997][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:56.998][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:56.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:56.998][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:56.999][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:56.999][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:56.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:56.999][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.000][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.001][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.001][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.002][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.002][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.006][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.006][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.007][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.007][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.008][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.008][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.009][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.009][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.010][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.011][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.011][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.011][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.012][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.014][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.018][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.023][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-10-23 18:46:57.026][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.027][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.029][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 18:46:57.030][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:57.031][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:57.033][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-23 18:46:57.034][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 18:46:57.041][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.042][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.042][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.044][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.044][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:57.045][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.046][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.047][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.048][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.049][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.049][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.051][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.051][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:57.052][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-10-23 18:46:57.052][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 18:46:57.052][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 18:46:57.054][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-10-23 18:46:57.054][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 18:46:57.054][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 18:46:57.055][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 18:46:57.055][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.056][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.058][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:57.059][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.059][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.060][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.061][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.062][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.062][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.062][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.064][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.064][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.064][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.064][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.065][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.066][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.066][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.067][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.067][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.068][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.068][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.069][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.069][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.070][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.071][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.071][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.072][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.072][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.072][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.073][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.074][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.074][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.078][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.078][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.079][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.079][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.080][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.080][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.081][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.082][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.082][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.083][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.084][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.084][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.084][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.085][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.086][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.087][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.089][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.096][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-10-23 18:46:57.097][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.098][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.099][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 18:46:57.106][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:57.107][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:57.108][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-23 18:46:57.108][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 18:46:57.109][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.114][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:57.115][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.116][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.117][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.118][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.118][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.120][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.121][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.121][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[2025-10-23 18:46:57.121][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-10-23 18:46:57.121][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 18:46:57.122][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 18:46:57.123][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-10-23 18:46:57.123][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 18:46:57.124][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 18:46:57.124][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 18:46:57.124][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.125][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.125][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.126][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.127][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:57.128][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.128][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.129][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.130][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.131][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.131][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.131][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.132][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.132][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.133][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.133][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.133][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.134][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.134][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.134][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.135][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.135][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.136][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.136][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.136][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.137][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.137][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.137][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.138][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.138][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.138][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.139][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.139][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.140][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.141][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.141][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.141][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.142][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.143][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.143][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.147][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.150][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.158][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-10-23 18:46:57.158][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.159][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.160][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.161][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.162][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.163][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.164][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.166][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.167][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:57.167][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-10-23 18:46:57.168][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 18:46:57.168][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 18:46:57.170][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-10-23 18:46:57.170][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 18:46:57.170][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 18:46:57.171][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 18:46:57.171][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.172][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.174][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:57.176][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.176][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.176][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.177][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.178][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.178][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.179][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.179][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.179][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.180][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.180][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.181][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.181][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.181][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.182][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.184][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.185][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.185][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.186][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.186][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.187][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.187][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.187][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.188][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.188][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.188][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.189][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.189][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.190][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.190][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.191][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.191][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.192][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.192][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.193][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.193][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.194][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.205][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-10-23 18:46:57.205][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.206][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.207][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.208][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.209][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.210][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.210][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.212][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.213][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:57.214][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-10-23 18:46:57.214][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 18:46:57.216][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 18:46:57.218][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-10-23 18:46:57.219][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 18:46:57.219][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 18:46:57.219][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 18:46:57.220][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.220][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.222][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.223][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.223][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:57.224][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.225][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.225][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.225][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.227][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.227][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.227][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.228][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.228][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.229][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.229][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.229][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.230][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.230][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.230][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.231][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.231][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.231][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.232][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.232][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.232][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.233][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.233][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.233][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.234][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.234][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.235][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.235][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.235][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.236][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.237][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.237][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.238][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.238][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.239][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.240][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.240][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.240][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.242][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.254][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-10-23 18:46:57.254][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.255][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.257][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.258][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.259][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.260][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.260][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.262][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.263][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:57.263][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-10-23 18:46:57.264][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 18:46:57.264][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 18:46:57.266][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-10-23 18:46:57.267][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 18:46:57.267][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 18:46:57.267][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 18:46:57.268][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.268][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.271][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.271][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:57.272][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.273][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.273][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.275][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.275][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.275][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.276][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.277][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.277][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.278][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.278][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.279][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.280][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.280][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.280][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.282][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.282][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.282][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.283][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.284][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.284][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.285][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.285][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.286][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.286][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.297][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.297][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.298][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.299][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.299][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.300][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.301][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.301][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.302][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.302][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.303][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.303][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.304][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.304][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.305][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.306][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.306][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.306][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.306][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.307][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.308][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.311][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.318][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-10-23 18:46:57.318][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.319][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.321][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.322][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.324][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.324][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:57.325][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-10-23 18:46:57.325][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 18:46:57.326][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 18:46:57.327][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-10-23 18:46:57.328][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 18:46:57.328][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 18:46:57.329][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 18:46:57.329][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.332][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.335][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.335][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:57.336][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.337][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.337][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.339][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.339][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.339][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.340][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.341][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.341][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.342][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.342][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.343][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.343][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.344][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.344][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.345][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.346][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.346][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.346][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.348][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.348][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.348][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.349][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.350][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.350][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.350][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.351][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.351][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.352][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.352][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.353][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.354][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.354][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.355][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.355][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.356][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.357][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.357][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.357][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.357][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.359][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.359][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.359][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.360][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.366][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.374][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-10-23 18:46:57.375][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.376][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.377][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.378][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.380][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.381][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:57.382][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-10-23 18:46:57.382][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 18:46:57.382][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 18:46:57.384][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-10-23 18:46:57.385][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 18:46:57.385][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 18:46:57.386][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 18:46:57.386][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.386][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.388][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.389][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:57.390][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.390][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.391][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.392][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.393][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.393][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.393][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.395][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.395][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.395][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.396][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.397][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.397][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.398][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.398][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.399][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.399][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.400][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.400][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.404][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.404][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.405][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.405][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.406][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.406][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.407][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.408][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.408][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.409][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.409][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.410][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.410][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.411][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.411][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.412][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.413][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.413][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.413][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.415][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.415][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.415][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.416][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.417][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.418][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.420][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.427][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-10-23 18:46:57.427][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.429][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.430][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.431][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.431][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.433][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.434][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.434][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[2025-10-23 18:46:57.434][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-10-23 18:46:57.435][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 18:46:57.435][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 18:46:57.439][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-10-23 18:46:57.440][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 18:46:57.441][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 18:46:57.441][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 18:46:57.442][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.442][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.444][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.445][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:57.446][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.446][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.447][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.448][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.448][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.449][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.449][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.450][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.451][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.451][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.452][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.453][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.453][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.453][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.454][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.455][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.455][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.455][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.456][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.456][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.457][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.457][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.458][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.458][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.459][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.459][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.460][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.461][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.461][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.462][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.463][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.463][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.464][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.464][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.466][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.466][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.466][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.467][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.468][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.468][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.469][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.469][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.470][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.471][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.476][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.484][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-10-23 18:46:57.484][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.485][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.486][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.487][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.488][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.490][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.490][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:57.491][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-10-23 18:46:57.491][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 18:46:57.492][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 18:46:57.493][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-10-23 18:46:57.494][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 18:46:57.494][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 18:46:57.494][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 18:46:57.495][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.495][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.497][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.498][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:57.499][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.499][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.499][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.501][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.501][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.502][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.502][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.503][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.503][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.504][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.504][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.505][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.506][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.506][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.506][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.506][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.508][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.508][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.508][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.511][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.513][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.513][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.514][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.514][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.515][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.515][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.515][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.517][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.517][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.517][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.518][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.519][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.519][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.520][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.520][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.521][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.521][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.522][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.522][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.523][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.523][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.523][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.524][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.524][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.526][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.528][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.535][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-10-23 18:46:57.536][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.538][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.539][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.539][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.541][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.542][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:57.545][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-10-23 18:46:57.545][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 18:46:57.546][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 18:46:57.547][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-10-23 18:46:57.548][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 18:46:57.548][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 18:46:57.549][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 18:46:57.549][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.549][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.551][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.552][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.552][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.TRACE[2025-10-23 18:46:57.553][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.553][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.554][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.555][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.556][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.556][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.556][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.558][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.558][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.558][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.559][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.560][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.560][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.560][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.560][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.561][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.562][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.562][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.563][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.563][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.564][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.564][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.565][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.565][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.565][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.566][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.566][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.567][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.568][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.568][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.568][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.569][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.570][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.570][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.570][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.571][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.572][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.572][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.572][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.573][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.574][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.574][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.575][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.575][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.576][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.582][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.585][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.590][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-10-23 18:46:57.590][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.591][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.592][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.593][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.593][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.593][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.595][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.596][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:57.596][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-10-23 18:46:57.597][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 18:46:57.597][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 18:46:57.599][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-10-23 18:46:57.599][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 18:46:57.600][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 18:46:57.600][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 18:46:57.601][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.603][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.603][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:57.604][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.605][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.605][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.607][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.607][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.607][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.608][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.609][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.609][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.609][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.610][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.610][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.611][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.611][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.612][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.612][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.616][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.616][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.617][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.618][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.619][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.619][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.619][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.620][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.620][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.620][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.621][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.621][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.622][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.623][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.623][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.624][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.625][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.625][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.626][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.627][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.627][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.628][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.628][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.629][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.629][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.629][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.630][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.630][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.631][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.632][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.633][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.634][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.639][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.642][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-10-23 18:46:57.642][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.643][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.644][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.645][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.645][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.646][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.652][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.653][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:57.653][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-10-23 18:46:57.654][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 18:46:57.654][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 18:46:57.656][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-10-23 18:46:57.656][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 18:46:57.657][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 18:46:57.657][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 18:46:57.658][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.658][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.660][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.660][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:57.662][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.662][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.662][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.663][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.664][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.664][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.665][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.665][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.666][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.667][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.667][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.667][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.667][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.668][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.669][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.669][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.670][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.670][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.670][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.671][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.671][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.671][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.672][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.672][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.672][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.673][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.673][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.674][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.674][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.675][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.675][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.676][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.677][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.677][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.678][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.679][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.679][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.679][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.680][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.681][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.681][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.682][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.682][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.683][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.695][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.696][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-10-23 18:46:57.697][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.699][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.700][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.700][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.701][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.703][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:57.704][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-10-23 18:46:57.704][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 18:46:57.705][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 18:46:57.706][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-10-23 18:46:57.706][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 18:46:57.707][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 18:46:57.707][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 18:46:57.708][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.708][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.710][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.711][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:57.712][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.712][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.712][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.714][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.714][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.715][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.715][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.716][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.717][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.717][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.717][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.719][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.719][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.719][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.720][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.720][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.720][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.720][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.721][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.721][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.722][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.722][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.725][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.725][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.726][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.727][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.727][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.728][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.728][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.729][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.730][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.730][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.731][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.732][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.732][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.732][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.733][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.734][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.734][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.735][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.735][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.736][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.741][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.746][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-10-23 18:46:57.746][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.747][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.748][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.749][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.749][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.751][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.752][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:57.753][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-10-23 18:46:57.753][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 18:46:57.753][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 18:46:57.755][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-10-23 18:46:57.755][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 18:46:57.756][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 18:46:57.756][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 18:46:57.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.757][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.762][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.762][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.763][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[2025-10-23 18:46:57.763][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.764][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.764][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.766][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.766][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.767][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.767][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.768][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.768][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.769][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.769][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.770][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.771][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.771][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.772][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.773][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.773][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.773][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.774][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.775][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.775][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.776][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.776][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.776][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.777][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.777][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.778][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.778][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.779][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.779][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.780][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.781][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.781][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.782][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.783][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.783][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.783][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.784][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.785][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.785][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.786][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.786][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.789][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.802][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-10-23 18:46:57.802][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.803][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.804][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.805][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.805][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.807][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.808][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:57.809][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-10-23 18:46:57.809][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 18:46:57.809][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 18:46:57.811][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-10-23 18:46:57.811][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 18:46:57.812][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 18:46:57.812][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 18:46:57.813][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.815][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.816][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:57.817][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.818][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.818][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.820][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.820][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.820][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.820][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.821][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.822][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.822][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.823][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.823][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.823][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.824][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.825][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.825][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.825][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.827][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.827][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.827][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.828][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.829][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.829][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.833][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.834][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.834][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.835][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.835][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.836][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.837][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.837][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.837][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.838][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.839][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.839][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.840][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.840][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.841][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.841][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.842][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.842][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.844][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.844][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.844][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.845][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.846][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.847][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.850][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.852][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.858][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-10-23 18:46:57.858][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.859][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.860][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.861][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.861][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.864][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.864][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[2025-10-23 18:46:57.865][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-10-23 18:46:57.865][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 18:46:57.865][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 18:46:57.869][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-10-23 18:46:57.870][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 18:46:57.871][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 18:46:57.871][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 18:46:57.872][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.872][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.875][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:57.876][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.876][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.877][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.878][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.878][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.879][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.879][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.880][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.881][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.881][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.882][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.883][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.883][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.884][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.884][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.885][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.885][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.886][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.886][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.887][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.887][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.888][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.888][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.889][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.889][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.889][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.890][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.891][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.891][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.891][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.892][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.893][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.893][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.894][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.894][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.895][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.895][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.896][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.896][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.897][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.898][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.898][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.898][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.900][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.901][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.909][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.914][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-10-23 18:46:57.914][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.916][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.917][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.918][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.918][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.920][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.920][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:57.921][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-10-23 18:46:57.921][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 18:46:57.922][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 18:46:57.923][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-10-23 18:46:57.923][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 18:46:57.924][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 18:46:57.924][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 18:46:57.925][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.925][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.925][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.927][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:57.929][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.929][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.929][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.931][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.931][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.932][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.932][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.933][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.933][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.934][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.934][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.935][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.936][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.936][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.936][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.938][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.941][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.942][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.942][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.943][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.944][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.944][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.945][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.945][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.945][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.946][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.947][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.947][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.948][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.948][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.949][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.949][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.950][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.950][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:57.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:57.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.951][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.952][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.952][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.953][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:57.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:57.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.954][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.954][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.954][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.955][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:57.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:57.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.956][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.957][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.959][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:57.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.966][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-10-23 18:46:57.966][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.968][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.969][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:57.970][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.970][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.970][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.975][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.975][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:57.976][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-10-23 18:46:57.976][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 18:46:57.977][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 18:46:57.978][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-10-23 18:46:57.979][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 18:46:57.979][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 18:46:57.980][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 18:46:57.980][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:57.980][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:57.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:57.982][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:57.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:57.983][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:57.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:57.984][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.984][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.985][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.985][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:57.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:57.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.986][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.986][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.987][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.987][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:57.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:57.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.988][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.989][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.989][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.990][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:57.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:57.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.991][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.991][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.991][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.992][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:57.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:57.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.993][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.993][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.993][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.994][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:57.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.995][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.995][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:57.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.996][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.996][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.996][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.997][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.997][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:57.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:57.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.998][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.999][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:57.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:57.999][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:57.999][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.001][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:58.001][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:58.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.001][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.002][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:58.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:58.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.003][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:58.003][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:58.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.004][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.004][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:58.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:58.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.005][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:58.005][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:58.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.006][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.006][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:58.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:58.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.014][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.018][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.021][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-10-23 18:46:58.022][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.023][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.024][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.025][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.025][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.027][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.028][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:58.028][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-10-23 18:46:58.029][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 18:46:58.029][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 18:46:58.031][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-10-23 18:46:58.031][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 18:46:58.031][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 18:46:58.032][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 18:46:58.032][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.033][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.035][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.036][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.037][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.037][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.038][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.039][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:58.039][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:58.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.040][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.040][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:58.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:58.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.041][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:58.042][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:58.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.042][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.043][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:58.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:58.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.048][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:58.049][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:58.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.050][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.050][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:58.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:58.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.051][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:58.052][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:58.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.052][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.053][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:58.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:58.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.054][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:58.054][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:58.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.055][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.055][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:58.056][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.056][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.056][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:58.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.058][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.058][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.058][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.059][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.060][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:58.060][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:58.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.061][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.061][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:58.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:58.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.062][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:58.062][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:58.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.063][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.063][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:58.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:58.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.064][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:58.065][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:58.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.065][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.065][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:58.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:58.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.066][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.068][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.070][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.071][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.075][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.077][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-10-23 18:46:58.078][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.083][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.085][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.085][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.085][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.088][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.088][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:58.089][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-10-23 18:46:58.089][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 18:46:58.090][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 18:46:58.091][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-10-23 18:46:58.091][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 18:46:58.091][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 18:46:58.092][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 18:46:58.092][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.093][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.093][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.095][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.095][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.096][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.097][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.097][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.099][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:58.099][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:58.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.099][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.100][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:58.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:58.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.101][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:58.101][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:58.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.102][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.102][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:58.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:58.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.103][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:58.104][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:58.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.104][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.105][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:58.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:58.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.106][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:58.106][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:58.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.107][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.107][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:58.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:58.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.108][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:58.108][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:58.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.109][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.109][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:58.109][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.110][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.110][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:58.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.112][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.112][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.112][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.113][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.114][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:58.114][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:58.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.115][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.115][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:58.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:58.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.116][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:58.116][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:58.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.117][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.117][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:58.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:58.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.121][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:58.122][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:58.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.123][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.123][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:58.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:58.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.124][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.125][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.127][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.134][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.135][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-10-23 18:46:58.135][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.136][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.137][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 18:46:58.145][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:58.146][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:58.147][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-23 18:46:58.148][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 18:46:58.149][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.149][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.149][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.151][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.151][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.152][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.153][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.154][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.155][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.159][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.162][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.162][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.163][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.164][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.165][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.167][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.168][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.169][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.171][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.172][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.172][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.173][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.175][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.176][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.177][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.178][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.178][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.178][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.180][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.181][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.182][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.183][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.184][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.185][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.186][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.187][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.188][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.190][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.191][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.191][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.194][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.198][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.198][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.201][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.201][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.202][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.203][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.205][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.206][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.206][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.206][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.208][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.209][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.210][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.211][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.212][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.213][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.213][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.215][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.215][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.216][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.217][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.218][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.220][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.220][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.220][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.222][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.223][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.223][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.224][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.226][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.227][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.227][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.227][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.229][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.230][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.230][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.232][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.233][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.236][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.237][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.237][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.240][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.244][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.245][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.246][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.248][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.250][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.251][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.251][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.252][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.253][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.254][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.255][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.255][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.257][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.260][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.261][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.262][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.264][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.264][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.266][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.266][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.267][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.268][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.269][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.270][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.270][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.272][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.273][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.273][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.274][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.276][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.279][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.282][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.282][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.283][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.284][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.285][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.286][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.287][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.287][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.288][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.289][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.289][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.290][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.292][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.293][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.293][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.293][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.295][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.295][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.296][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.297][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.298][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.299][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.300][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.302][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.302][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.303][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.304][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.305][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.306][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.306][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.307][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.308][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.309][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.309][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.310][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.311][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.325][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.329][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.330][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 18:46:58.339][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:58.340][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:58.341][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-10-23 18:46:58.341][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-23 18:46:58.342][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:58.343][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:58.344][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-10-23 18:46:58.345][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 18:46:58.345][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.346][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.348][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.348][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:58.349][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-10-23 18:46:58.349][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 18:46:58.350][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 18:46:58.351][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-10-23 18:46:58.351][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 18:46:58.352][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 18:46:58.352][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 18:46:58.353][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.353][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.355][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.355][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.356][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.357][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.360][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.362][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:58.362][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:58.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.363][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.363][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:58.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:58.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.364][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:58.365][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:58.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.365][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.366][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:58.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:58.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.367][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:58.367][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:58.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.367][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.368][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:58.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:58.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.369][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:58.369][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:58.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.370][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.370][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:58.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:58.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.371][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:58.371][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:58.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.372][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.372][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:58.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:58.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.373][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:58.373][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.374][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.374][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:58.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.375][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.376][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.376][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.377][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:58.378][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:58.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.378][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.379][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:58.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:58.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.380][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:58.380][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:58.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.380][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.381][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:58.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:58.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.382][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:58.382][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:58.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.383][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.383][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:58.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:58.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.384][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.385][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.399][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-10-23 18:46:58.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.401][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.402][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.402][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.403][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.404][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.405][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.407][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.408][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.409][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.409][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.409][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.411][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.411][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:58.412][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-10-23 18:46:58.412][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 18:46:58.413][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 18:46:58.414][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-10-23 18:46:58.414][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 18:46:58.415][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 18:46:58.415][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 18:46:58.416][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.416][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.416][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.418][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.418][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.419][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.420][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.420][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.422][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:58.422][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:58.422][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.422][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.423][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:58.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:58.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.424][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:58.424][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:58.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.425][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.425][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:58.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:58.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.426][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:58.429][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:58.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.430][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.431][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:58.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:58.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.432][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:58.432][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:58.433][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.433][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.433][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:58.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:58.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.434][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:58.435][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:58.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.435][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.436][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:58.436][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.436][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.437][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:58.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.438][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.438][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.439][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.439][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.440][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:58.440][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:58.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.441][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.441][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:58.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:58.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.442][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:58.443][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:58.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.443][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.443][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:58.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:58.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.445][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:58.445][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:58.445][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.445][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.446][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:58.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:58.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.447][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.448][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.450][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.454][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:58.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:58.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.457][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-10-23 18:46:58.458][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.459][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.463][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 18:46:58.471][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:58.472][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:58.473][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-23 18:46:58.473][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 18:46:58.474][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.474][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.474][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.476][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.476][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.478][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.479][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.480][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.480][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.482][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.482][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.483][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.484][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.486][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.487][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.488][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.488][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.490][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.490][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.491][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.492][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.493][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.494][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.495][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.498][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.499][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.501][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.501][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.502][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.503][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.504][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.506][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.507][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.507][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.509][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.509][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.510][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.511][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.512][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.513][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.513][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.514][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.515][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.515][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.516][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.517][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.518][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.519][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.519][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.520][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.521][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.521][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.522][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.523][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.524][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.524][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.525][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.526][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.526][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.527][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.530][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.533][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.535][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.535][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.536][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.537][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.538][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.539][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.539][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.540][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.541][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.541][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.544][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.545][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.546][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.547][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.548][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.549][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.550][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.550][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.552][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.553][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.553][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.555][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.556][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.556][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.558][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.558][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.559][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.564][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.565][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.565][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.567][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.567][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.568][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.569][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.571][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.571][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.572][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.573][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.576][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.577][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.577][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.578][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.579][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.580][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.581][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.584][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.585][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.585][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.586][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.587][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.588][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.589][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.590][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.591][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.597][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.597][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.597][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.599][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.599][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.600][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.601][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.603][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.603][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.605][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.605][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.607][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.608][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 18:46:58.614][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:58.615][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:58.616][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-23 18:46:58.616][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 18:46:58.617][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.617][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.619][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.619][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.620][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.621][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.623][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.623][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.623][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.625][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.625][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.630][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.631][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.632][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.633][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.634][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.634][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.636][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.636][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.637][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.638][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.639][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.640][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.641][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.642][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.643][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.644][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.644][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.645][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.647][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.648][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.649][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.650][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.652][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.652][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.655][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.655][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.659][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.660][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.661][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.662][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.663][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.664][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.664][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.666][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.666][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.667][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.668][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.669][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.670][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.670][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.670][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.671][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.672][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.672][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.673][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.674][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.675][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.675][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.677][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.678][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.678][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.679][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.680][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.681][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.681][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.682][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.683][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.683][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.684][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.686][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.687][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.687][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.691][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.692][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.692][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.693][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.694][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.696][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.696][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.697][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.698][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.698][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.699][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.700][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.701][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.703][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.705][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.706][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.707][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.707][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.709][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.709][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.710][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.711][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.713][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.713][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.715][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.715][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.716][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.717][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.718][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.719][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.723][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.723][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.724][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.726][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.727][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.727][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.729][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.729][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.730][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.732][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.733][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.733][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.735][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.735][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.736][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.737][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.738][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.738][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.739][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.740][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.741][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.741][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.742][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.744][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.745][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.746][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.747][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.748][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.758][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-23 18:46:58.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-23 18:46:58.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-23 18:46:58.761][biodb::testThat]
biodb.INFO [2025-10-23 18:46:58.762][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-10-23 18:46:58.762][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 18:46:58.762][biodb::testThat]
biodb.TRACE[2025-10-23 18:46:58.763][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-23 18:46:58.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-23 18:46:58.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.764][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.765][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.766][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.769][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.769][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.770][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.771][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.772][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-23 18:46:58.773][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:58.773][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:58.774][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-23 18:46:58.774][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 18:46:58.775][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.775][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.775][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.777][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.777][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.778][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.779][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.780][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 18:46:58.781][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:58.782][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:58.782][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-23 18:46:58.783][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 18:46:58.783][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.783][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.784][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.785][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.785][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.855][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.856][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.859][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.860][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.861][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.861][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.862][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.863][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:58.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.864][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-23 18:46:58.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.867][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.867][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.868][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.869][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.875][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:58.875][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 18:46:58.876][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 18:46:58.876][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 18:46:58.876][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:58.876][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.877][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.877][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.878][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.878][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.878][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.879][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:58.879][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:58.879][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.879][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.880][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.880][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 18:46:58.880][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.886][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-23 18:46:58.887][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.887][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.890][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.891][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.891][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[2025-10-23 18:46:58.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.893][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:58.894][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 18:46:58.894][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 18:46:58.894][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 18:46:58.894][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:58.895][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.895][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.896][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.896][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.896][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.897][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.897][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:58.897][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:58.898][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.898][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.898][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.899][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 18:46:58.899][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.900][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.901][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.903][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-23 18:46:58.903][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.903][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.906][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.906][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.909][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:58.910][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 18:46:58.910][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 18:46:58.910][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 18:46:58.910][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:58.911][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.911][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.912][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.912][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.912][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.913][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.913][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:58.914][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:58.914][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.914][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.915][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.915][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 18:46:58.915][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:58.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.919][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-23 18:46:58.919][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-23 18:46:58.920][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-23 18:46:58.924][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.925][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.928][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.948][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.948][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.951][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.951][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-23 18:46:58.953][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:58.954][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:58.955][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-23 18:46:58.955][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-23 18:46:58.956][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:58.957][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:58.958][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-23 18:46:58.958][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 18:46:58.959][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.960][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.963][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.965][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.966][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.970][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.970][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.970][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.972][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.972][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.974][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.976][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.976][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.978][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:58.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:58.978][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:58.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:58.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.980][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:58.981][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:58.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:58.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:58.990][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-23 18:46:58.997][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:58.997][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:58.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:58.999][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.000][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.000][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.003][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.003][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 18:46:59.003][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 18:46:59.003][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 18:46:59.004][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.004][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.004][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.005][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.005][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.005][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.006][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.006][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.006][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.006][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.007][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.007][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.007][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 18:46:59.008][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.011][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-23 18:46:59.011][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.012][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.014][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.020][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.028][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.028][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 18:46:59.028][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 18:46:59.028][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 18:46:59.029][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.029][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.029][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.030][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.030][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.030][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.031][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.031][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.035][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.035][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.035][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.036][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.036][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 18:46:59.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.038][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.039][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.040][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-23 18:46:59.040][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.040][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.043][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.043][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.044][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.046][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.046][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 18:46:59.046][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 18:46:59.047][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 18:46:59.047][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.047][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.048][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.048][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.048][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.049][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.049][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.049][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.050][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.050][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.050][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.051][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.051][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 18:46:59.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.056][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.057][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-23 18:46:59.057][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-23 18:46:59.058][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-23 18:46:59.061][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-23 18:46:59.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-23 18:46:59.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-23 18:46:59.063][biodb::testThat]
biodb.INFO [2025-10-23 18:46:59.063][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-10-23 18:46:59.064][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 18:46:59.064][biodb::testThat]
biodb.TRACE[2025-10-23 18:46:59.065][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-23 18:46:59.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-23 18:46:59.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.066][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.069][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:59.071][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.072][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.072][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.074][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.074][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-23 18:46:59.075][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:59.076][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:59.077][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-23 18:46:59.077][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 18:46:59.078][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.079][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.081][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.081][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.082][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.083][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.084][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 18:46:59.085][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:59.086][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:59.087][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-23 18:46:59.087][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 18:46:59.088][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.090][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.091][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.092][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.093][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:59.095][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.095][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.097][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.097][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.098][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.099][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.100][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:59.101][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-23 18:46:59.102][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.102][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.102][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.104][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.105][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.106][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.107][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.108][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 18:46:59.108][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 18:46:59.108][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 18:46:59.109][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.109][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.109][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.110][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.110][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.110][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.111][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.111][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.111][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.111][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.112][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.112][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.112][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 18:46:59.113][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.115][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.116][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-23 18:46:59.116][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.117][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.119][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.120][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.120][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.121][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.122][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.123][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 18:46:59.123][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 18:46:59.123][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 18:46:59.124][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.124][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.124][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.125][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.125][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.125][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.126][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.126][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.126][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.126][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.127][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.127][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.127][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 18:46:59.128][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.129][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.130][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.131][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-23 18:46:59.131][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.132][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.134][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.134][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.136][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.137][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.137][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 18:46:59.137][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 18:46:59.138][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 18:46:59.138][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.138][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.139][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.139][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.139][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.140][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.140][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.140][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.141][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.141][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.141][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.142][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.142][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 18:46:59.142][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.146][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-23 18:46:59.146][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-23 18:46:59.147][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-23 18:46:59.150][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.152][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.156][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:59.158][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.158][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.158][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.160][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.160][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-23 18:46:59.161][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:59.162][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:59.163][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-23 18:46:59.163][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-23 18:46:59.164][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:59.165][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:59.166][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-23 18:46:59.166][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 18:46:59.167][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.167][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.167][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.169][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.169][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.171][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.172][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:59.173][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.173][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.174][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.175][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.176][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.176][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.177][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.178][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:59.179][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.179][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.181][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.182][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.182][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:59.185][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-23 18:46:59.186][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.186][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.188][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.188][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.189][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.190][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.191][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.191][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 18:46:59.192][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 18:46:59.192][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 18:46:59.192][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.192][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.193][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.193][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.193][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.194][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.194][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.194][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.195][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.195][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.195][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.196][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.196][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 18:46:59.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.198][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.199][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-23 18:46:59.200][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.200][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.200][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.202][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.202][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.204][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.205][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.205][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 18:46:59.206][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 18:46:59.206][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 18:46:59.206][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.206][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.207][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.207][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.207][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.208][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.208][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.208][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.209][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.209][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.209][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.210][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.210][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 18:46:59.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.212][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.213][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-23 18:46:59.214][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.214][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.216][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.216][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.218][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.219][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.219][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 18:46:59.219][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 18:46:59.220][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 18:46:59.220][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.220][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.221][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.221][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.221][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.222][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.222][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.222][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.223][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.223][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.223][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.224][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.224][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 18:46:59.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.225][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.227][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-23 18:46:59.228][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-23 18:46:59.228][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-23 18:46:59.231][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-23 18:46:59.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-23 18:46:59.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-23 18:46:59.233][biodb::testThat]
biodb.INFO [2025-10-23 18:46:59.233][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-10-23 18:46:59.234][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 18:46:59.234][biodb::testThat]
biodb.TRACE[2025-10-23 18:46:59.235][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-23 18:46:59.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-23 18:46:59.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.236][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.237][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.238][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.239][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:59.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.242][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.244][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.244][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-23 18:46:59.245][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:59.246][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:59.247][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-23 18:46:59.247][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 18:46:59.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.248][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.253][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.253][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.254][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.255][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.256][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 18:46:59.257][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:59.258][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:59.259][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-23 18:46:59.259][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 18:46:59.260][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.260][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.261][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.262][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.263][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.265][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.266][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:59.267][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.267][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.267][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.269][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.269][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.270][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.271][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.272][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:59.273][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-23 18:46:59.273][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.274][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.275][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.276][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.277][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.278][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.279][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.279][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 18:46:59.279][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 18:46:59.279][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 18:46:59.280][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.280][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.280][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.281][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.281][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.281][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.282][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.282][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.282][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.282][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.283][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.283][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.283][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 18:46:59.284][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.287][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-23 18:46:59.287][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.287][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.289][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.290][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.291][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.292][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.293][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 18:46:59.293][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 18:46:59.293][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 18:46:59.293][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.294][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.294][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.294][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.295][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.295][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.295][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.296][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.296][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.296][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.296][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.297][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.297][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 18:46:59.297][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.298][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.300][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.301][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-23 18:46:59.301][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.301][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.301][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.303][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.304][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.305][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.306][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.306][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 18:46:59.307][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 18:46:59.307][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 18:46:59.307][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.307][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.308][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.308][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.308][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.309][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.309][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.309][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.310][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.310][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.310][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.311][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.311][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 18:46:59.311][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.312][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.313][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.314][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-23 18:46:59.315][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-23 18:46:59.315][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-23 18:46:59.321][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.322][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.323][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.325][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:59.327][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.327][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.329][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.329][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.329][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-23 18:46:59.331][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:59.331][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:59.332][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-23 18:46:59.332][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-23 18:46:59.333][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:59.334][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:59.335][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-23 18:46:59.335][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 18:46:59.336][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.336][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.336][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.338][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.338][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.340][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:59.342][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.342][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.344][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.347][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.348][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.350][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:59.351][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.351][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.353][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.354][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.354][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:59.357][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-23 18:46:59.358][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.360][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.360][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.363][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.363][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 18:46:59.364][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 18:46:59.364][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 18:46:59.364][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.364][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.365][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.365][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.365][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.366][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.366][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.366][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.367][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.367][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.367][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.368][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.368][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 18:46:59.368][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.370][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.371][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-23 18:46:59.372][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.372][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.374][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.374][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.375][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.TRACE[2025-10-23 18:46:59.375][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.376][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.377][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.377][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 18:46:59.377][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 18:46:59.378][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 18:46:59.378][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.378][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.378][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.379][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.379][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.379][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.380][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.380][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.380][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.381][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.381][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.381][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.382][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 18:46:59.382][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.384][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.385][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-23 18:46:59.386][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.386][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.388][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.388][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.389][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.390][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.391][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.391][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 18:46:59.391][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 18:46:59.392][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 18:46:59.392][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.392][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.392][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.393][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.393][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.393][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.394][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.394][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.394][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.394][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 18:46:59.395][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.395][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.395][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.396][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 18:46:59.396][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.397][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.399][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-23 18:46:59.399][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-23 18:46:59.400][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-23 18:46:59.406][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-23 18:46:59.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-23 18:46:59.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-23 18:46:59.408][biodb::testThat]
biodb.INFO [2025-10-23 18:46:59.408][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-10-23 18:46:59.409][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 18:46:59.409][biodb::testThat]
biodb.DEBUG[2025-10-23 18:46:59.409][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-10-23 18:46:59.410][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 18:46:59.410][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 18:46:59.411][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-10-23 18:46:59.411][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 18:46:59.412][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 18:46:59.412][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 18:46:59.413][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.413][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.413][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.415][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.415][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.416][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.417][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.417][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.419][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:59.419][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:59.419][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.420][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.420][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:59.420][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:59.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.421][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.421][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:59.421][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:59.422][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.422][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.422][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:59.422][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:59.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.423][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.423][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:59.423][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:59.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.424][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.424][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:59.425][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.425][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.425][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.425][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.426][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.426][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.426][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:59.427][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:59.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.427][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.428][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:59.428][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:59.428][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.428][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.429][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:59.429][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:59.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.429][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.430][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.431][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.433][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.441][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:59.442][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-10-23 18:46:59.443][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-10-23 18:46:59.446][biodb::testThat]
biodb.INFO [2025-10-23 18:46:59.446][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-10-23 18:46:59.446][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 18:46:59.446][biodb::testThat]
biodb.DEBUG[2025-10-23 18:46:59.450][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-10-23 18:46:59.450][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-10-23 18:46:59.450][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-10-23 18:46:59.451][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 18:46:59.452][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-10-23 18:46:59.453][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-10-23 18:46:59.454][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-10-23 18:46:59.455][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 18:46:59.455][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-10-23 18:46:59.455][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-10-23 18:46:59.456][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.456][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.458][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.459][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.460][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.461][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.461][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.463][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:59.463][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:59.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.463][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.464][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:59.464][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:59.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.465][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.465][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:59.465][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:59.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.466][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.466][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:59.466][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:59.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.467][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.467][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:59.467][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:59.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.468][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.468][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:59.468][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.469][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.469][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.470][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.470][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.470][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:59.471][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:59.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.471][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.472][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:59.472][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:59.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.472][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.473][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:59.473][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:59.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.473][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.474][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.475][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.477][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:59.481][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.481][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.482][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.484][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.484][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.485][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.486][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.486][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.488][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:59.488][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:59.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.488][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.489][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:59.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:59.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.490][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:59.490][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:59.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.490][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.491][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:59.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:59.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.492][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:59.492][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:59.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.493][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.493][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:59.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:59.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.494][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:59.494][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:59.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.495][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.495][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:59.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:59.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.496][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:59.496][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:59.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.497][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.497][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:59.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:59.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.498][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:59.499][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.499][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.499][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:59.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.500][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.501][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.501][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.502][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.503][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:59.503][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:59.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.503][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.504][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:59.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:59.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.505][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:59.505][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:59.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.506][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.506][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:59.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:59.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.507][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:59.507][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:59.507][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.508][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.508][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:59.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:59.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.509][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.510][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:59.516][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.517][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.519][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.519][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:46:59.520][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.521][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.521][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.523][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:59.523][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:59.523][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.523][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.524][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:46:59.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:46:59.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.525][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:59.525][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:59.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.526][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.526][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:46:59.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:46:59.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.527][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:59.527][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:59.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.528][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.528][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:46:59.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:46:59.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.529][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:59.529][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:59.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.530][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.530][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:46:59.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:46:59.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.531][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:59.532][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:59.532][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.532][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.532][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:59.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:46:59.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.536][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:59.536][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.537][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.537][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:46:59.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:46:59.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.538][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.538][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.539][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.540][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:59.540][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:59.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.541][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.541][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:59.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:59.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.542][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:59.543][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:59.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.543][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.543][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:46:59.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:46:59.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.544][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:59.545][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:59.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.545][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.545][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:46:59.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:46:59.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.546][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.547][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:46:59.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.550][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.560][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:46:59.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:46:59.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:46:59.563][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-10-23 18:46:59.563][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-10-23 18:46:59.563][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-10-23 18:46:59.568][biodb::testThat]
biodb.INFO [2025-10-23 18:46:59.568][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-10-23 18:46:59.568][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 18:46:59.569][biodb::testThat]
biodb.INFO [2025-10-23 18:46:59.577][biodb::testThat]
biodb.INFO [2025-10-23 18:46:59.577][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-10-23 18:46:59.578][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 18:46:59.578][biodb::testThat]
biodb.INFO [2025-10-23 18:46:59.581][biodb::testThat]
biodb.INFO [2025-10-23 18:46:59.581][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-10-23 18:46:59.581][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 18:46:59.581][biodb::testThat]
sched.DEBUG[2025-10-23 18:46:59.582][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:59.583][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:59.585][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-10-23 18:46:59.586][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-23 18:46:59.590][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:46:59.590][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:46:59.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.591][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:46:59.591][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.591][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:46:59.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:46:59.592][ef$get] fields variable is a list.
biodb.INFO [2025-10-23 18:46:59.592][biodb::testThat]
biodb.INFO [2025-10-23 18:46:59.593][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-10-23 18:46:59.593][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 18:46:59.593][biodb::testThat]
biodb.ERROR[2025-10-23 18:46:59.597][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-10-23 18:46:59.603][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-10-23 18:46:59.606][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-23 18:46:59.607][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-23 18:46:59.607][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-23 18:46:59.607][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.608][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.608][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-23 18:46:59.612][biodb::testContext]
biodb.INFO [2025-10-23 18:46:59.612][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-23 18:46:59.612][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-10-23 18:46:59.613][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-23 18:46:59.613][biodb::testContext]
biodb.INFO [2025-10-23 18:46:59.614][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-23 18:46:59.614][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-23 18:46:59.616][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 18:46:59.616][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-23 18:46:59.616][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-23 18:46:59.617][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.617][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-23 18:46:59.618][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-23 18:46:59.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.619][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-23 18:46:59.619][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-23 18:46:59.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.620][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-23 18:46:59.620][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-23 18:46:59.620][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-23 18:46:59.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.621][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-23 18:46:59.621][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-23 18:46:59.622][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-23 18:46:59.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.623][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-23 18:46:59.623][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-23 18:46:59.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.624][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-23 18:46:59.624][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-23 18:46:59.624][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-23 18:46:59.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.625][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-23 18:46:59.626][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-23 18:46:59.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.627][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-23 18:46:59.627][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-23 18:46:59.627][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-23 18:46:59.627][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.628][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-23 18:46:59.628][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-23 18:46:59.629][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-23 18:46:59.629][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-23 18:46:59.629][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-23 18:46:59.629][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-23 18:46:59.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.633][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-23 18:46:59.633][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-23 18:46:59.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.634][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-23 18:46:59.635][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-23 18:46:59.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.636][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-23 18:46:59.636][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-23 18:46:59.636][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.637][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-23 18:46:59.637][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-23 18:46:59.637][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-23 18:46:59.638][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.638][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-23 18:46:59.638][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-23 18:46:59.645][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-23 18:46:59.645][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.646][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-23 18:46:59.646][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-23 18:46:59.646][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-23 18:46:59.647][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.647][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-23 18:46:59.648][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:59.648][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-23 18:46:59.649][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.649][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 18:46:59.649][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.649][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 18:46:59.650][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:59.650][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 18:46:59.650][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-23 18:46:59.650][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 18:46:59.651][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.651][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-23 18:46:59.651][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 18:46:59.651][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:59.652][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.652][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 18:46:59.652][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 18:46:59.652][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 18:46:59.652][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-23 18:46:59.652][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-23 18:46:59.652][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 18:46:59.652][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:46:59.653][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:46:59.653][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 18:46:59.653][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:46:59.653][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:46:59.654][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 18:46:59.654][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:59.654][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 18:46:59.654][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 18:46:59.655][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:59.655][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:59.655][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-23 18:46:59.656][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:59.656][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-23 18:46:59.656][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.657][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 18:46:59.657][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.657][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 18:46:59.657][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:59.658][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 18:46:59.658][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-23 18:46:59.658][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 18:46:59.658][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.659][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-23 18:46:59.659][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 18:46:59.659][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:59.659][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.660][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 18:46:59.660][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 18:46:59.660][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 18:46:59.660][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-23 18:46:59.660][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-23 18:46:59.660][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 18:46:59.660][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:46:59.660][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:46:59.661][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 18:46:59.661][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:46:59.661][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:46:59.661][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 18:46:59.662][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:59.662][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 18:46:59.662][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 18:46:59.662][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:59.663][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:59.663][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-23 18:46:59.663][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.664][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-23 18:46:59.664][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.664][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 18:46:59.665][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.665][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 18:46:59.665][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:59.665][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 18:46:59.666][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-23 18:46:59.666][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 18:46:59.666][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:59.666][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-23 18:46:59.667][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 18:46:59.667][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:59.667][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.667][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:59.668][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 18:46:59.668][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:46:59.668][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:46:59.668][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 18:46:59.669][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:46:59.669][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:46:59.669][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 18:46:59.669][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:59.670][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 18:46:59.670][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 18:46:59.670][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:59.670][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:59.671][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-23 18:46:59.671][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.672][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-23 18:46:59.672][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.672][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 18:46:59.672][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.673][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 18:46:59.673][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:59.673][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 18:46:59.674][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-23 18:46:59.674][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 18:46:59.674][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:59.674][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-23 18:46:59.675][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 18:46:59.675][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:59.675][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.675][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:59.676][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 18:46:59.676][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:46:59.676][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:46:59.676][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 18:46:59.677][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:46:59.677][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:46:59.677][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 18:46:59.677][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:59.678][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 18:46:59.678][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 18:46:59.678][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:59.678][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:59.679][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 18:46:59.679][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.679][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.682][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.685][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.694][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.695][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.698][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-23 18:46:59.698][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-23 18:46:59.699][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-23 18:46:59.699][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-23 18:46:59.699][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-23 18:46:59.700][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-23 18:46:59.700][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-23 18:46:59.700][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-23 18:46:59.701][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-23 18:46:59.701][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-23 18:46:59.702][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-23 18:46:59.702][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-23 18:46:59.702][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-23 18:46:59.703][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-23 18:46:59.703][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-23 18:46:59.704][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-23 18:46:59.704][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-23 18:46:59.704][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-23 18:46:59.705][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-23 18:46:59.705][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-23 18:46:59.705][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-23 18:46:59.706][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-23 18:46:59.706][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-23 18:46:59.707][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-23 18:46:59.707][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-23 18:46:59.707][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-23 18:46:59.708][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-23 18:46:59.708][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-23 18:46:59.708][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-23 18:46:59.709][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-23 18:46:59.709][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-23 18:46:59.710][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-23 18:46:59.710][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-23 18:46:59.710][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-23 18:46:59.711][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-23 18:46:59.711][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-23 18:46:59.711][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-23 18:46:59.712][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-23 18:46:59.712][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-23 18:46:59.712][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-23 18:46:59.713][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-23 18:46:59.713][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-23 18:46:59.714][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-23 18:46:59.714][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-23 18:46:59.714][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-23 18:46:59.715][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-23 18:46:59.715][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-23 18:46:59.715][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-23 18:46:59.716][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-23 18:46:59.716][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-23 18:46:59.717][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-23 18:46:59.717][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-23 18:46:59.717][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-23 18:46:59.718][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-23 18:46:59.718][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-23 18:46:59.718][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-23 18:46:59.719][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-23 18:46:59.719][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-23 18:46:59.720][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-23 18:46:59.720][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-23 18:46:59.720][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-23 18:46:59.723][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-23 18:46:59.724][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-23 18:46:59.724][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-23 18:46:59.724][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-23 18:46:59.725][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-23 18:46:59.725][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-23 18:46:59.726][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-23 18:46:59.726][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-23 18:46:59.726][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-23 18:46:59.727][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-23 18:46:59.727][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-23 18:46:59.727][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-23 18:46:59.728][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-23 18:46:59.728][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-23 18:46:59.728][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-23 18:46:59.729][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-23 18:46:59.729][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-23 18:46:59.730][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-23 18:46:59.730][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-23 18:46:59.730][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-23 18:46:59.731][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-23 18:46:59.731][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-23 18:46:59.731][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-23 18:46:59.732][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-23 18:46:59.732][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 18:46:59.733][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.733][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.733][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[2025-10-23 18:46:59.734][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.734][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.735][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.736][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.738][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[2025-10-23 18:46:59.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.740][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.740][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.741][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[2025-10-23 18:46:59.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.742][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.747][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.749][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.751][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.753][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.755][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.756][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.759][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-23 18:46:59.760][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-23 18:46:59.761][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:59.761][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-23 18:46:59.761][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.762][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 18:46:59.762][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.762][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 18:46:59.762][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.763][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-23 18:46:59.763][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-23 18:46:59.763][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 18:46:59.763][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.764][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-23 18:46:59.764][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 18:46:59.764][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-23 18:46:59.764][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-23 18:46:59.764][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-23 18:46:59.764][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-23 18:46:59.764][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-23 18:46:59.764][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-23 18:46:59.764][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-23 18:46:59.764][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-23 18:46:59.764][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-23 18:46:59.764][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-23 18:46:59.764][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-23 18:46:59.764][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:59.765][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 18:46:59.765][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 18:46:59.765][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 18:46:59.765][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-23 18:46:59.765][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:46:59.766][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:46:59.766][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 18:46:59.766][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:46:59.766][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:46:59.767][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 18:46:59.767][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-23 18:46:59.767][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-23 18:46:59.767][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 18:46:59.767][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 18:46:59.767][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.768][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-23 18:46:59.768][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-23 18:46:59.768][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-23 18:46:59.769][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-23 18:46:59.769][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-23 18:46:59.769][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-23 18:46:59.770][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-23 18:46:59.770][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-23 18:46:59.771][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-23 18:46:59.773][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-23 18:46:59.774][biodb::testThat]
biodb.INFO [2025-10-23 18:46:59.774][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-10-23 18:46:59.774][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 18:46:59.774][biodb::testThat]
sched.DEBUG[2025-10-23 18:46:59.775][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-23 18:46:59.776][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:59.778][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-23 18:46:59.778][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-23 18:46:59.779][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:59.780][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:59.781][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-23 18:46:59.781][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 18:46:59.782][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.782][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.782][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.784][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.784][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.785][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-23 18:46:59.785][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:59.786][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:59.787][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-23 18:46:59.787][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 18:46:59.788][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.789][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.791][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.791][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.797][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.797][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.797][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.799][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.799][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-23 18:46:59.801][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:59.802][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:59.803][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-23 18:46:59.803][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 18:46:59.803][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.804][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.806][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.806][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".
sched.DEBUG[2025-10-23 18:46:59.807][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:59.807][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:59.808][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-23 18:46:59.808][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 18:46:59.809][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.809][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.811][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.811][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.812][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.812][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.812][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.814][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.814][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".
sched.DEBUG[2025-10-23 18:46:59.816][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:59.816][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:59.820][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-23 18:46:59.820][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 18:46:59.821][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.821][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.821][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.823][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.823][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.824][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".
sched.DEBUG[2025-10-23 18:46:59.824][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:59.825][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:59.826][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-23 18:46:59.826][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 18:46:59.826][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.827][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.827][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.828][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.829][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-23 18:46:59.830][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:59.831][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:59.831][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-10-23 18:46:59.832][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 18:46:59.832][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.833][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.833][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.834][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.835][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-23 18:46:59.837][biodb::testThat]
biodb.INFO [2025-10-23 18:46:59.837][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-10-23 18:46:59.838][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 18:46:59.838][biodb::testThat]
sched.DEBUG[2025-10-23 18:46:59.839][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:59.840][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:59.841][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-10-23 18:46:59.841][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 18:46:59.842][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.842][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.842][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.844][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.845][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.845][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".
sched.DEBUG[2025-10-23 18:46:59.846][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-23 18:46:59.847][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:46:59.848][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-10-23 18:46:59.848][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 18:46:59.849][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:46:59.849][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.849][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.851][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.852][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-23 18:46:59.854][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-23 18:46:59.854][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-23 18:46:59.854][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-23 18:46:59.854][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.855][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.855][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-23 18:46:59.857][biodb::testContext]
biodb.INFO [2025-10-23 18:46:59.857][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-23 18:46:59.858][biodb::testContext] Test context - Test web services
biodb.INFO [2025-10-23 18:46:59.858][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-23 18:46:59.858][biodb::testContext]
biodb.INFO [2025-10-23 18:46:59.859][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-23 18:46:59.859][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-23 18:46:59.861][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 18:46:59.861][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-23 18:46:59.861][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-23 18:46:59.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.862][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-23 18:46:59.863][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-23 18:46:59.863][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.864][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[2025-10-23 18:46:59.864][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-23 18:46:59.864][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-23 18:46:59.864][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.865][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-23 18:46:59.865][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-23 18:46:59.866][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-23 18:46:59.866][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.867][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-23 18:46:59.867][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-23 18:46:59.867][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-23 18:46:59.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.868][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-23 18:46:59.868][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-23 18:46:59.869][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.869][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-23 18:46:59.870][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-23 18:46:59.870][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-23 18:46:59.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.871][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-23 18:46:59.871][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-23 18:46:59.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.872][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-23 18:46:59.872][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-23 18:46:59.873][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-23 18:46:59.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.874][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-23 18:46:59.874][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-23 18:46:59.874][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-23 18:46:59.874][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-23 18:46:59.875][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-23 18:46:59.875][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-23 18:46:59.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.876][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-23 18:46:59.876][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-23 18:46:59.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.877][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-23 18:46:59.877][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-23 18:46:59.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.878][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-23 18:46:59.878][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-23 18:46:59.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.879][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-23 18:46:59.880][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-23 18:46:59.880][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-23 18:46:59.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.881][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[2025-10-23 18:46:59.881][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-23 18:46:59.881][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-23 18:46:59.886][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-23 18:46:59.887][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.887][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-23 18:46:59.888][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-23 18:46:59.888][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-23 18:46:59.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.889][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[2025-10-23 18:46:59.889][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-23 18:46:59.890][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:59.890][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-23 18:46:59.890][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.891][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 18:46:59.891][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.891][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 18:46:59.891][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:59.892][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 18:46:59.892][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-23 18:46:59.892][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 18:46:59.892][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.893][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-23 18:46:59.893][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 18:46:59.893][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:59.893][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.894][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 18:46:59.894][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 18:46:59.894][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 18:46:59.894][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-23 18:46:59.894][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-23 18:46:59.894][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 18:46:59.894][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:46:59.895][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:46:59.895][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 18:46:59.895][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:46:59.895][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:46:59.896][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 18:46:59.896][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:59.896][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 18:46:59.896][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 18:46:59.897][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:59.897][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:59.897][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-23 18:46:59.898][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:59.898][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-23 18:46:59.898][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.899][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 18:46:59.899][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.899][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 18:46:59.899][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:59.900][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 18:46:59.900][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-23 18:46:59.900][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 18:46:59.900][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.901][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-23 18:46:59.901][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 18:46:59.901][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:59.901][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.902][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 18:46:59.902][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 18:46:59.902][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 18:46:59.902][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-23 18:46:59.902][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-23 18:46:59.902][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 18:46:59.902][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:46:59.903][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:46:59.903][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 18:46:59.903][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:46:59.903][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:46:59.904][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 18:46:59.904][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:59.904][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 18:46:59.904][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 18:46:59.905][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:59.905][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:59.905][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-23 18:46:59.906][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.906][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-23 18:46:59.906][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.907][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 18:46:59.907][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.907][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 18:46:59.907][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:59.908][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 18:46:59.908][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-23 18:46:59.908][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 18:46:59.908][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:59.909][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-23 18:46:59.909][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 18:46:59.909][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:59.909][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.910][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:59.910][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 18:46:59.910][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:46:59.910][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:46:59.911][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 18:46:59.911][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:46:59.911][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:46:59.911][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 18:46:59.912][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:59.912][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 18:46:59.912][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 18:46:59.912][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:59.913][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:59.913][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-23 18:46:59.913][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.914][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-23 18:46:59.914][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.914][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 18:46:59.915][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.915][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 18:46:59.915][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:59.915][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 18:46:59.916][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-23 18:46:59.916][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 18:46:59.916][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:59.916][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-23 18:46:59.917][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 18:46:59.917][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:59.917][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 18:46:59.917][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:59.918][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 18:46:59.918][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:46:59.918][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:46:59.921][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 18:46:59.922][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:46:59.922][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:46:59.922][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 18:46:59.923][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:59.923][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 18:46:59.923][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 18:46:59.923][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 18:46:59.924][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 18:46:59.924][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 18:46:59.924][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.924][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[2025-10-23 18:46:59.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.932][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.938][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.943][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-23 18:46:59.944][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-23 18:46:59.944][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-23 18:46:59.945][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-23 18:46:59.945][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-23 18:46:59.945][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-23 18:46:59.946][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-23 18:46:59.946][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-23 18:46:59.947][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-23 18:46:59.947][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-23 18:46:59.947][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-23 18:46:59.948][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-23 18:46:59.948][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-23 18:46:59.948][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-23 18:46:59.949][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-23 18:46:59.949][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-23 18:46:59.949][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-23 18:46:59.950][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-23 18:46:59.950][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-23 18:46:59.951][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-23 18:46:59.951][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-23 18:46:59.951][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-23 18:46:59.952][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-23 18:46:59.952][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-23 18:46:59.953][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-23 18:46:59.953][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-23 18:46:59.953][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-23 18:46:59.954][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-23 18:46:59.954][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-23 18:46:59.955][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-23 18:46:59.955][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-23 18:46:59.955][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-23 18:46:59.956][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-23 18:46:59.956][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-23 18:46:59.956][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-23 18:46:59.957][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-23 18:46:59.957][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-23 18:46:59.957][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-23 18:46:59.958][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-23 18:46:59.958][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-23 18:46:59.959][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-23 18:46:59.959][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-23 18:46:59.959][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-23 18:46:59.960][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-23 18:46:59.960][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-23 18:46:59.960][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-23 18:46:59.961][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-23 18:46:59.961][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-23 18:46:59.961][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-23 18:46:59.962][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-23 18:46:59.962][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-23 18:46:59.963][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-23 18:46:59.963][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-23 18:46:59.963][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-23 18:46:59.964][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-23 18:46:59.964][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-23 18:46:59.964][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-23 18:46:59.965][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-23 18:46:59.965][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-23 18:46:59.966][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-23 18:46:59.966][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-23 18:46:59.966][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-23 18:46:59.967][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-23 18:46:59.967][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-23 18:46:59.967][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-23 18:46:59.968][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-23 18:46:59.968][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-23 18:46:59.968][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-23 18:46:59.969][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-23 18:46:59.969][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-23 18:46:59.970][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-23 18:46:59.970][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-23 18:46:59.970][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-23 18:46:59.971][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-23 18:46:59.971][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-23 18:46:59.971][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-23 18:46:59.972][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-23 18:46:59.972][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-23 18:46:59.972][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-23 18:46:59.973][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-23 18:46:59.973][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-23 18:46:59.974][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-23 18:46:59.974][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-23 18:46:59.974][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-23 18:46:59.975][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-23 18:46:59.975][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 18:46:59.975][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.976][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.976][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.977][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.978][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.978][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.982][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.987][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.993][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.996][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.DEBUG[2025-10-23 18:46:59.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:46:59.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:46:59.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:46:59.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:46:59.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:46:59.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:46:59.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:46:59.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:47:00.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:47:00.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.001][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:47:00.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:47:00.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.007][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-23 18:47:00.007][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-23 18:47:00.008][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 18:47:00.008][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-23 18:47:00.009][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 18:47:00.009][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 18:47:00.009][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 18:47:00.009][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 18:47:00.010][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-23 18:47:00.010][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-23 18:47:00.010][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-23 18:47:00.011][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 18:47:00.011][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 18:47:00.011][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-23 18:47:00.011][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 18:47:00.012][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-23 18:47:00.012][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-23 18:47:00.012][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-23 18:47:00.012][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-23 18:47:00.012][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-23 18:47:00.012][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-23 18:47:00.012][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-23 18:47:00.012][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-23 18:47:00.012][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-23 18:47:00.012][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-23 18:47:00.012][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-23 18:47:00.012][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-23 18:47:00.012][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 18:47:00.012][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 18:47:00.012][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 18:47:00.012][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-23 18:47:00.013][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:47:00.013][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:47:00.013][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 18:47:00.013][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:47:00.014][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:47:00.014][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 18:47:00.014][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-23 18:47:00.014][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-23 18:47:00.014][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 18:47:00.015][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 18:47:00.015][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-23 18:47:00.015][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-23 18:47:00.015][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-23 18:47:00.016][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-23 18:47:00.016][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-23 18:47:00.017][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-23 18:47:00.017][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-23 18:47:00.017][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-23 18:47:00.018][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-23 18:47:00.019][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-23 18:47:00.020][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-23 18:47:00.021][biodb::testThat]
biodb.INFO [2025-10-23 18:47:00.021][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-10-23 18:47:00.021][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 18:47:00.022][biodb::testThat]
sched.DEBUG[2025-10-23 18:47:00.022][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-23 18:47:00.023][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:47:00.025][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-23 18:47:00.025][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-23 18:47:00.027][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-23 18:47:00.028][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:47:00.028][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-23 18:47:00.029][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-23 18:47:00.032][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-23 18:47:00.032][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-23 18:47:00.032][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-23 18:47:00.032][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:47:00.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:47:00.033][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.033][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-23 18:47:00.035][biodb::testContext]
biodb.INFO [2025-10-23 18:47:00.035][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-23 18:47:00.035][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-10-23 18:47:00.036][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-23 18:47:00.036][biodb::testContext]
biodb.INFO [2025-10-23 18:47:00.037][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-23 18:47:00.037][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-23 18:47:00.039][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 18:47:00.039][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-23 18:47:00.039][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-23 18:47:00.040][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.040][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-23 18:47:00.041][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-23 18:47:00.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.042][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-23 18:47:00.042][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-23 18:47:00.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.043][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-23 18:47:00.043][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-23 18:47:00.043][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-23 18:47:00.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.044][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-23 18:47:00.045][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-23 18:47:00.045][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-23 18:47:00.045][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.046][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-23 18:47:00.046][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-23 18:47:00.046][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.047][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-23 18:47:00.047][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-23 18:47:00.048][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-23 18:47:00.048][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.049][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-23 18:47:00.049][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-23 18:47:00.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.050][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-23 18:47:00.050][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-23 18:47:00.050][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-23 18:47:00.051][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.051][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[2025-10-23 18:47:00.051][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-23 18:47:00.052][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-23 18:47:00.052][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-23 18:47:00.052][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-23 18:47:00.052][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-23 18:47:00.053][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-23 18:47:00.053][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.054][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-23 18:47:00.054][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-23 18:47:00.054][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.055][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-23 18:47:00.055][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-23 18:47:00.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.056][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-23 18:47:00.056][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-23 18:47:00.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.057][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[2025-10-23 18:47:00.057][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-23 18:47:00.058][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-23 18:47:00.058][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-23 18:47:00.058][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.059][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-23 18:47:00.059][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-23 18:47:00.064][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-23 18:47:00.064][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.065][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[2025-10-23 18:47:00.065][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-23 18:47:00.066][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-23 18:47:00.066][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-23 18:47:00.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.067][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-23 18:47:00.068][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 18:47:00.068][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-23 18:47:00.068][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 18:47:00.068][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 18:47:00.069][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 18:47:00.069][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 18:47:00.069][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 18:47:00.070][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 18:47:00.070][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-23 18:47:00.070][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 18:47:00.070][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 18:47:00.071][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-23 18:47:00.071][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 18:47:00.071][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 18:47:00.071][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 18:47:00.072][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 18:47:00.072][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 18:47:00.072][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 18:47:00.072][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-23 18:47:00.072][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-23 18:47:00.072][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 18:47:00.072][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:47:00.072][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:47:00.073][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 18:47:00.073][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:47:00.073][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:47:00.073][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 18:47:00.074][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 18:47:00.074][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 18:47:00.074][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 18:47:00.074][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 18:47:00.075][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 18:47:00.075][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-23 18:47:00.076][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 18:47:00.076][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-23 18:47:00.076][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 18:47:00.076][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 18:47:00.077][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 18:47:00.077][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 18:47:00.077][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 18:47:00.077][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 18:47:00.078][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-23 18:47:00.078][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 18:47:00.078][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 18:47:00.078][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-23 18:47:00.079][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 18:47:00.079][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 18:47:00.079][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 18:47:00.079][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 18:47:00.079][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 18:47:00.079][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 18:47:00.079][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-23 18:47:00.079][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-23 18:47:00.080][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 18:47:00.080][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:47:00.080][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:47:00.080][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 18:47:00.081][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:47:00.081][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:47:00.081][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 18:47:00.081][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 18:47:00.082][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 18:47:00.082][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 18:47:00.082][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 18:47:00.082][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 18:47:00.083][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-23 18:47:00.083][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-23 18:47:00.084][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-23 18:47:00.084][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 18:47:00.084][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 18:47:00.084][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 18:47:00.085][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 18:47:00.085][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 18:47:00.085][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 18:47:00.085][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-23 18:47:00.086][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 18:47:00.086][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-23 18:47:00.086][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-23 18:47:00.086][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 18:47:00.087][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 18:47:00.087][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 18:47:00.087][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-23 18:47:00.088][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 18:47:00.088][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:47:00.088][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:47:00.088][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 18:47:00.089][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:47:00.089][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:47:00.089][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 18:47:00.089][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 18:47:00.090][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 18:47:00.090][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 18:47:00.090][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 18:47:00.090][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 18:47:00.091][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-23 18:47:00.091][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-23 18:47:00.091][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-23 18:47:00.092][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 18:47:00.092][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 18:47:00.092][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 18:47:00.092][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 18:47:00.093][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 18:47:00.093][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 18:47:00.093][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-23 18:47:00.093][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 18:47:00.094][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-23 18:47:00.094][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-23 18:47:00.094][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 18:47:00.094][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 18:47:00.095][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 18:47:00.095][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-23 18:47:00.095][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 18:47:00.095][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:47:00.096][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:47:00.096][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 18:47:00.096][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:47:00.096][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:47:00.097][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 18:47:00.097][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 18:47:00.097][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 18:47:00.097][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 18:47:00.098][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 18:47:00.098][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 18:47:00.098][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 18:47:00.099][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.099][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.DEBUG[2025-10-23 18:47:00.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.100][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.105][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.106][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.DEBUG[2025-10-23 18:47:00.106][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.108][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.109][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.110][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[2025-10-23 18:47:00.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.111][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[2025-10-23 18:47:00.111][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.112][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[2025-10-23 18:47:00.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.113][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[2025-10-23 18:47:00.113][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.119][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[2025-10-23 18:47:00.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.121][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[2025-10-23 18:47:00.121][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.122][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[2025-10-23 18:47:00.122][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.123][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.DEBUG[2025-10-23 18:47:00.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.124][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[2025-10-23 18:47:00.124][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.125][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[2025-10-23 18:47:00.126][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-23 18:47:00.126][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-23 18:47:00.126][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-23 18:47:00.127][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-23 18:47:00.127][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-23 18:47:00.128][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-23 18:47:00.128][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-23 18:47:00.128][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-23 18:47:00.129][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-23 18:47:00.129][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-23 18:47:00.129][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-23 18:47:00.130][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-23 18:47:00.130][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-23 18:47:00.131][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-23 18:47:00.131][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-23 18:47:00.131][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-23 18:47:00.132][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-23 18:47:00.132][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-23 18:47:00.132][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-23 18:47:00.133][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-23 18:47:00.133][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-23 18:47:00.133][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-23 18:47:00.134][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-23 18:47:00.134][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-23 18:47:00.135][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-23 18:47:00.135][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-23 18:47:00.135][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-23 18:47:00.136][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-23 18:47:00.136][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-23 18:47:00.136][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-23 18:47:00.137][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-23 18:47:00.137][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-23 18:47:00.138][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-23 18:47:00.138][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-23 18:47:00.138][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-23 18:47:00.139][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-23 18:47:00.139][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-23 18:47:00.140][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-23 18:47:00.140][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-23 18:47:00.140][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-23 18:47:00.141][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-23 18:47:00.141][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-23 18:47:00.142][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-23 18:47:00.142][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-23 18:47:00.142][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-23 18:47:00.143][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-23 18:47:00.143][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-23 18:47:00.143][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-23 18:47:00.144][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-23 18:47:00.144][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-23 18:47:00.145][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-23 18:47:00.145][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-23 18:47:00.145][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-23 18:47:00.146][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-23 18:47:00.146][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-23 18:47:00.146][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-23 18:47:00.147][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-23 18:47:00.147][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-23 18:47:00.148][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-23 18:47:00.148][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-23 18:47:00.148][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-23 18:47:00.149][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-23 18:47:00.149][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-23 18:47:00.149][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-23 18:47:00.150][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-23 18:47:00.150][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-23 18:47:00.151][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-23 18:47:00.151][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-23 18:47:00.151][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-23 18:47:00.152][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-23 18:47:00.152][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-23 18:47:00.153][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-23 18:47:00.153][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-23 18:47:00.153][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-23 18:47:00.154][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-23 18:47:00.154][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-23 18:47:00.154][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-23 18:47:00.155][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-23 18:47:00.155][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-23 18:47:00.156][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-23 18:47:00.156][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-23 18:47:00.156][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-23 18:47:00.157][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-23 18:47:00.157][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-23 18:47:00.158][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-23 18:47:00.158][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 18:47:00.158][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.159][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.159][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:47:00.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:47:00.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:47:00.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:47:00.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.162][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.162][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:47:00.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:47:00.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.164][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[2025-10-23 18:47:00.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:47:00.164][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:47:00.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:47:00.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:47:00.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:47:00.168][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:47:00.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.169][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[2025-10-23 18:47:00.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:47:00.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:47:00.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.171][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:47:00.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:47:00.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.172][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[2025-10-23 18:47:00.172][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:47:00.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:47:00.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.174][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:47:00.174][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:47:00.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:47:00.176][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:47:00.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.177][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[2025-10-23 18:47:00.177][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:47:00.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:47:00.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:47:00.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:47:00.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:47:00.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:47:00.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.182][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:47:00.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:47:00.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 18:47:00.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:47:00.184][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:47:00.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 18:47:00.185][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-23 18:47:00.186][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-23 18:47:00.187][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 18:47:00.187][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-23 18:47:00.187][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 18:47:00.187][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 18:47:00.188][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 18:47:00.188][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 18:47:00.188][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-23 18:47:00.189][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-23 18:47:00.192][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-23 18:47:00.192][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 18:47:00.193][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 18:47:00.193][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-23 18:47:00.193][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 18:47:00.193][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-23 18:47:00.193][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-23 18:47:00.193][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-23 18:47:00.193][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-23 18:47:00.193][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-23 18:47:00.193][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-23 18:47:00.193][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-23 18:47:00.193][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-23 18:47:00.193][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-23 18:47:00.193][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-23 18:47:00.193][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-23 18:47:00.194][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-23 18:47:00.194][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 18:47:00.194][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 18:47:00.194][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 18:47:00.194][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-23 18:47:00.195][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:47:00.195][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:47:00.195][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 18:47:00.195][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 18:47:00.196][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 18:47:00.196][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 18:47:00.196][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-23 18:47:00.196][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-23 18:47:00.196][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 18:47:00.197][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 18:47:00.197][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-23 18:47:00.197][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-23 18:47:00.197][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-23 18:47:00.198][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-23 18:47:00.198][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-23 18:47:00.199][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-23 18:47:00.199][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-23 18:47:00.199][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-23 18:47:00.200][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-23 18:47:00.201][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-23 18:47:00.203][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-23 18:47:00.203][biodb::testThat]
biodb.INFO [2025-10-23 18:47:00.204][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-10-23 18:47:00.204][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 18:47:00.204][biodb::testThat]
sched.DEBUG[2025-10-23 18:47:00.205][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-23 18:47:00.206][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:47:00.208][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-23 18:47:00.208][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-23 18:47:00.210][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-23 18:47:00.210][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 18:47:00.211][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-23 18:47:00.211][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 18:47:00.213][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-10-23 18:47:00.216][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 18:47:00.216][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 18:47:00.220][FUN] Found encoding UTF-8 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-10-23 18:47:00.221][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 18:47:00.221][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 18:47:00.221][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 18:47:00.222][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 18:47:00.222][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:47:00.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:47:00.224][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.225][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 18:47:00.226][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:47:00.226][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:47:00.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.227][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:47:00.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:47:00.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.228][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:47:00.229][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:47:00.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.229][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.230][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 18:47:00.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 18:47:00.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.231][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:47:00.231][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:47:00.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.231][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.232][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 18:47:00.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 18:47:00.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.233][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 18:47:00.233][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 18:47:00.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.234][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.234][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 18:47:00.234][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 18:47:00.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.235][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.235][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:47:00.235][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:47:00.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.236][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.236][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:47:00.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 18:47:00.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.237][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:47:00.238][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:47:00.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.238][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.238][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 18:47:00.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 18:47:00.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.240][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:47:00.240][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:47:00.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.240][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.241][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:47:00.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 18:47:00.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.242][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:47:00.242][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:47:00.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.242][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.243][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 18:47:00.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 18:47:00.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.244][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:47:00.244][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:47:00.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.245][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.245][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 18:47:00.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 18:47:00.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.246][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:47:00.246][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:47:00.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.247][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.247][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 18:47:00.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 18:47:00.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.248][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:47:00.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:47:00.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:47:00.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:47:00.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:47:00.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:47:00.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.251][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 18:47:00.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 18:47:00.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:47:00.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:47:00.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:47:00.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:47:00.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:47:00.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:47:00.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:47:00.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:47:00.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:47:00.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:47:00.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 18:47:00.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 18:47:00.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 18:47:00.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 18:47:00.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 18:47:00.259][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-10-23 18:47:00.260][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-23 18:47:00.260][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-23 18:47:00.261][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-23 18:47:00.261][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 18:47:00.261][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 18:47:00.261][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 18:47:00.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 18:47:00.262][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 18:47:00.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 357 ]
> 
> proc.time()
   user  system elapsed 
  4.623   0.272   6.179

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn0.7350.2561.052
ChebiEntry0.0910.0080.100