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This page was generated on 2025-10-04 12:05 -0400 (Sat, 04 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4853
lconwaymacOS 12.7.1 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4640
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4585
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4576
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 208/2341HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.15.1  (landing page)
Pierrick Roger
Snapshot Date: 2025-10-03 13:45 -0400 (Fri, 03 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 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    ERROR  skipped

CHECK results for biodbChebi on kjohnson3

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

raw results


Summary

Package: biodbChebi
Version: 1.15.1
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.15.1.tar.gz
StartedAt: 2025-10-03 18:26:21 -0400 (Fri, 03 Oct 2025)
EndedAt: 2025-10-03 18:26:50 -0400 (Fri, 03 Oct 2025)
EllapsedTime: 29.3 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 [2025-10-03 18:26:40.768][biodb::testContext]
biodb.INFO [2025-10-03 18:26:40.769][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-03 18:26:40.770][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-10-03 18:26:40.770][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-03 18:26:40.770][biodb::testContext]
biodb.INFO [2025-10-03 18:26:40.773][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-03 18:26:40.773][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-03 18:26:40.776][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-03 18:26:40.777][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-03 18:26:40.777][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-03 18:26:40.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.778][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-03 18:26:40.784][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-03 18:26:40.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.785][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-03 18:26:40.785][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-03 18:26:40.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.786][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-03 18:26:40.786][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-03 18:26:40.787][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-03 18:26:40.787][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.788][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-03 18:26:40.788][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-03 18:26:40.788][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-03 18:26:40.788][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.789][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-03 18:26:40.789][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-03 18:26:40.790][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.790][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-03 18:26:40.791][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-03 18:26:40.791][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-03 18:26:40.791][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.792][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-03 18:26:40.792][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-03 18:26:40.792][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.793][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-03 18:26:40.798][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-03 18:26:40.798][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-03 18:26:40.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.799][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-03 18:26:40.799][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-03 18:26:40.800][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-03 18:26:40.800][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-03 18:26:40.800][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-03 18:26:40.801][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-03 18:26:40.801][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.802][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-03 18:26:40.802][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-03 18:26:40.802][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.803][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-03 18:26:40.803][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-03 18:26:40.803][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.804][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-03 18:26:40.804][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-03 18:26:40.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.805][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-03 18:26:40.806][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-03 18:26:40.806][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-03 18:26:40.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.807][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-03 18:26:40.807][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-03 18:26:40.812][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-03 18:26:40.812][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.813][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-03 18:26:40.813][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-03 18:26:40.814][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-03 18:26:40.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.816][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-03 18:26:40.827][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:40.832][self$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[2025-10-03 18:26:40.833][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:40.833][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 18:26:40.833][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:40.833][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 18:26:40.834][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:40.834][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 18:26:40.834][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-03 18:26:40.834][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 18:26:40.835][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:40.835][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-03 18:26:40.835][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 18:26:40.836][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:40.836][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:40.836][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-03 18:26:40.836][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-03 18:26:40.836][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-03 18:26:40.836][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-03 18:26:40.836][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-03 18:26:40.836][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 18:26:40.837][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:40.837][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:40.837][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 18:26:40.837][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:40.838][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:40.838][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 18:26:40.838][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:40.838][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 18:26:40.839][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 18:26:40.839][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:40.839][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:40.839][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-03 18:26:40.840][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:40.840][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-03 18:26:40.841][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:40.841][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 18:26:40.841][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:40.841][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 18:26:40.842][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:40.842][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 18:26:40.842][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-03 18:26:40.842][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 18:26:40.843][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:40.843][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-03 18:26:40.843][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 18:26:40.843][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:40.844][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:40.844][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-03 18:26:40.844][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-03 18:26:40.844][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-03 18:26:40.844][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-03 18:26:40.844][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-03 18:26:40.844][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 18:26:40.845][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:40.845][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:40.845][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 18:26:40.845][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:40.846][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:40.846][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 18:26:40.846][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:40.846][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 18:26:40.847][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 18:26:40.847][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:40.847][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:40.847][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-03 18:26:40.848][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:40.848][self$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[2025-10-03 18:26:40.848][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:40.849][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 18:26:40.849][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:40.849][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 18:26:40.849][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:40.850][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 18:26:40.850][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-03 18:26:40.850][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 18:26:40.851][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:40.851][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-03 18:26:40.851][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 18:26:40.854][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:40.854][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:40.855][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:40.855][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 18:26:40.855][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:40.856][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:40.856][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 18:26:40.856][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:40.856][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:40.857][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 18:26:40.857][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:40.857][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 18:26:40.857][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 18:26:40.858][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:40.858][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:40.858][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-03 18:26:40.859][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:40.859][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-03 18:26:40.859][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:40.860][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 18:26:40.860][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:40.860][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 18:26:40.860][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:40.861][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 18:26:40.861][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-03 18:26:40.861][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 18:26:40.862][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:40.862][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-03 18:26:40.862][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 18:26:40.862][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:40.863][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:40.863][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:40.863][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 18:26:40.863][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:40.864][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:40.864][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 18:26:40.864][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:40.864][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:40.865][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 18:26:40.865][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:40.865][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 18:26:40.865][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 18:26:40.866][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:40.866][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:40.867][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-03 18:26:40.868][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.868][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[2025-10-03 18:26:40.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.869][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[2025-10-03 18:26:40.869][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.870][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[2025-10-03 18:26:40.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.873][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[2025-10-03 18:26:40.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.876][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[2025-10-03 18:26:40.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.877][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[2025-10-03 18:26:40.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.878][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[2025-10-03 18:26:40.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.880][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.881][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[2025-10-03 18:26:40.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.882][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[2025-10-03 18:26:40.882][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.885][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.887][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[2025-10-03 18:26:40.887][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-03 18:26:40.889][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-03 18:26:40.889][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-03 18:26:40.890][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-03 18:26:40.890][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-03 18:26:40.890][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-03 18:26:40.891][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-03 18:26:40.891][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-03 18:26:40.892][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-03 18:26:40.892][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-03 18:26:40.892][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-03 18:26:40.893][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-03 18:26:40.893][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-03 18:26:40.893][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-03 18:26:40.894][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-03 18:26:40.894][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-03 18:26:40.895][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-03 18:26:40.895][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-03 18:26:40.896][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-03 18:26:40.896][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-03 18:26:40.896][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-03 18:26:40.897][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-03 18:26:40.897][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-03 18:26:40.898][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-03 18:26:40.898][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-03 18:26:40.898][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-03 18:26:40.899][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-03 18:26:40.899][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-03 18:26:40.900][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-03 18:26:40.900][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-03 18:26:40.900][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-03 18:26:40.901][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-03 18:26:40.901][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-03 18:26:40.901][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-03 18:26:40.904][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-03 18:26:40.905][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-03 18:26:40.905][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-03 18:26:40.905][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-03 18:26:40.906][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-03 18:26:40.906][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-03 18:26:40.907][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-03 18:26:40.907][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-03 18:26:40.907][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-03 18:26:40.908][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-03 18:26:40.908][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-03 18:26:40.908][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-03 18:26:40.909][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-03 18:26:40.909][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-03 18:26:40.910][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-03 18:26:40.910][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-03 18:26:40.910][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-03 18:26:40.911][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-03 18:26:40.911][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-03 18:26:40.911][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-03 18:26:40.912][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-03 18:26:40.912][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-03 18:26:40.913][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-03 18:26:40.913][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-03 18:26:40.913][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-03 18:26:40.914][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-03 18:26:40.914][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-03 18:26:40.914][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-03 18:26:40.915][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-03 18:26:40.915][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-03 18:26:40.916][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-03 18:26:40.916][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-03 18:26:40.917][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-03 18:26:40.917][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-03 18:26:40.917][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-03 18:26:40.918][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-03 18:26:40.918][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-03 18:26:40.919][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-03 18:26:40.919][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-03 18:26:40.919][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-03 18:26:40.920][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-03 18:26:40.920][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-03 18:26:40.920][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-03 18:26:40.921][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-03 18:26:40.921][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-03 18:26:40.922][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-03 18:26:40.922][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-03 18:26:40.922][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-03 18:26:40.923][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-03 18:26:40.925][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-03 18:26:40.925][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-03 18:26:40.927][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-03 18:26:40.927][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.927][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.928][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[2025-10-03 18:26:40.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:40.930][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:40.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:40.931][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:40.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.932][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[2025-10-03 18:26:40.932][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:40.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:40.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.934][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[2025-10-03 18:26:40.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:40.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:40.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.936][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[2025-10-03 18:26:40.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:40.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:40.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:40.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:40.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.939][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[2025-10-03 18:26:40.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:40.940][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:40.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.940][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[2025-10-03 18:26:40.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:40.941][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:40.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.942][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[2025-10-03 18:26:40.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:40.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:40.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.944][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[2025-10-03 18:26:40.944][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:40.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:40.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.946][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:40.946][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:40.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.947][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[2025-10-03 18:26:40.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:40.948][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:40.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:40.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:40.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:40.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:40.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:40.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:40.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:40.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:40.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:40.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:40.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:40.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:40.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:40.958][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-03 18:26:40.962][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-03 18:26:40.963][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:40.963][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-03 18:26:40.963][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:40.963][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 18:26:40.964][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:40.964][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 18:26:40.964][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:40.965][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-03 18:26:40.965][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-03 18:26:40.965][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 18:26:40.965][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:40.966][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-03 18:26:40.966][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 18:26:40.966][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-03 18:26:40.966][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-03 18:26:40.966][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-03 18:26:40.966][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-03 18:26:40.966][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-03 18:26:40.966][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-03 18:26:40.966][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-03 18:26:40.966][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-03 18:26:40.966][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-03 18:26:40.966][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-03 18:26:40.966][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-03 18:26:40.966][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:40.967][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-03 18:26:40.967][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-03 18:26:40.967][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-03 18:26:40.967][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-03 18:26:40.967][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:40.968][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:40.968][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 18:26:40.968][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:40.968][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:40.969][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 18:26:40.969][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-03 18:26:40.969][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-03 18:26:40.969][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 18:26:40.969][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 18:26:40.970][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:40.970][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-03 18:26:40.970][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-03 18:26:40.972][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-03 18:26:40.972][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-03 18:26:40.973][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-03 18:26:40.973][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-03 18:26:40.974][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-03 18:26:40.974][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-03 18:26:40.984][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-03 18:26:40.992][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-03 18:26:40.996][biodb::testThat]
biodb.INFO [2025-10-03 18:26:40.997][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-10-03 18:26:40.997][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 18:26:40.997][biodb::testThat]
biodb.TRACE[2025-10-03 18:26:40.999][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-10-03 18:26:41.000][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 18:26:41.001][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 18:26:41.004][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:41.005][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:41.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:41.011][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:41.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:41.011][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:41.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:41.016][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.016][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.016][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.026][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:41.027][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:41.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.027][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.036][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:41.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:41.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.037][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:41.037][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:41.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.038][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.038][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:41.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:41.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.039][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:41.040][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:41.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.040][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.040][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:41.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:41.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.041][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.042][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.042][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.043][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.044][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:41.044][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:41.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.045][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.045][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:41.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:41.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.046][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:41.046][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.047][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.047][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:41.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.048][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:41.049][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:41.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.049][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:41.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:41.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.051][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:41.051][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:41.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.051][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.052][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:41.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:41.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.053][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:41.053][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:41.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.054][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.054][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:41.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:41.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.055][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:41.056][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:41.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.056][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.056][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:41.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:41.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.059][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:41.082][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-10-03 18:26:41.083][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:41.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:41.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.084][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:41.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:41.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.092][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.094][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.095][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.096][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.097][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-03 18:26:41.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-03 18:26:41.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.098][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-03 18:26:41.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-03 18:26:41.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.099][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-03 18:26:41.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-03 18:26:41.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.121][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-03 18:26:41.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-03 18:26:41.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.129][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.134][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.135][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.138][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.145][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.148][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.148][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.148][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.153][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.154][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.155][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.160][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.160][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.161][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.161][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.165][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:41.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:41.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.166][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:41.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:41.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.169][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:41.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:41.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.171][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:41.171][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:41.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.171][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.172][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:41.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:41.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.176][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:41.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:41.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.177][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:41.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:41.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.178][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:41.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:41.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.179][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:41.179][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:41.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.180][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.180][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:41.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:41.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.184][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.185][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.186][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.187][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.187][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.188][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.188][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.191][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:41.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:41.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.193][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:41.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:41.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:41.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:41.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.195][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:41.195][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:41.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.196][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.196][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:41.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:41.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.200][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:41.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:41.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.201][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:41.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:41.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.202][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:41.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:41.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.203][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:41.203][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:41.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.204][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.204][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:41.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:41.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.207][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-03 18:26:41.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:41.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.211][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-03 18:26:41.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:41.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.212][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-03 18:26:41.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:41.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.213][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-03 18:26:41.213][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:41.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.214][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.214][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-03 18:26:41.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:41.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.218][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:41.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:41.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.219][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:41.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:41.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.220][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:41.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:41.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.221][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:41.221][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:41.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.222][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.222][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:41.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:41.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.226][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:41.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:41.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.227][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:41.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:41.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.228][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:41.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:41.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.229][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:41.229][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:41.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.230][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.230][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:41.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:41.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.233][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.234][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.235][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.237][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.237][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.237][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.238][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.241][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:41.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:41.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.242][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:41.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:41.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.244][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:41.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:41.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.245][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:41.245][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:41.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.245][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.246][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:41.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:41.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.252][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.252][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.252][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.254][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:41.254][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:41.255][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.255][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.256][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:41.257][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:41.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.257][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.259][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:41.259][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:41.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.260][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.261][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.261][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.262][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.263][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:41.264][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:41.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.264][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.266][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.266][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.266][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.268][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:41.268][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:41.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.269][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.270][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-03 18:26:41.271][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:41.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.271][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.273][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:41.273][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:41.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.274][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.275][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:41.276][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:41.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.276][ef$get] fields variable is a list.
biodb.INFO [2025-10-03 18:26:41.279][biodb::testThat]
biodb.INFO [2025-10-03 18:26:41.279][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-10-03 18:26:41.280][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 18:26:41.280][biodb::testThat]
biodb.DEBUG[2025-10-03 18:26:41.284][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-10-03 18:26:41.286][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 18:26:41.287][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 18:26:41.290][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-10-03 18:26:41.290][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 18:26:41.300][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 18:26:41.301][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 18:26:41.301][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:41.302][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:41.302][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:41.304][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:41.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:41.304][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:41.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:41.305][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.306][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.306][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.306][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.313][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:41.313][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:41.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.314][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.314][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:41.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:41.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.315][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:41.316][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:41.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.316][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.317][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:41.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:41.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.318][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:41.318][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:41.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.318][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.319][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:41.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:41.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.320][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.320][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.321][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.321][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.322][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:41.322][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:41.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.323][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.323][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:41.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:41.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.324][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:41.325][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.325][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.325][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:41.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.327][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:41.327][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:41.327][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.327][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:41.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:41.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.329][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:41.329][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:41.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.330][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.330][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:41.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:41.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.331][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:41.331][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:41.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.332][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.332][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:41.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:41.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.333][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:41.334][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:41.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.334][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.334][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:41.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:41.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.339][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.340][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.342][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:41.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.348][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:41.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:41.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:41.349][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-10-03 18:26:41.349][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-10-03 18:26:41.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-10-03 18:26:41.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.351][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-10-03 18:26:41.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-10-03 18:26:41.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-10-03 18:26:41.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-10-03 18:26:41.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-03 18:26:41.356][biodb::testThat]
biodb.INFO [2025-10-03 18:26:41.356][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-10-03 18:26:41.356][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 18:26:41.356][biodb::testThat]
biodb.TRACE[2025-10-03 18:26:41.357][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:41.358][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:41.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.358][ef$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:41.359][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-10-03 18:26:41.367][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:41.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:41.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.368][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:41.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:41.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.369][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:41.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:41.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:41.371][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-10-03 18:26:41.373][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-03 18:26:41.382][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:41.384][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-03 18:26:41.384][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-03 18:26:41.391][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 [2025-10-03 18:26:41.401][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:41.402][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-03 18:26:41.402][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 18:26:41.403][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-10-03 18:26:41.407][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:41.408][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:41.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.408][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.408][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.409][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.409][ef$get] fields variable is a list.
biodb.INFO [2025-10-03 18:26:41.411][biodb::testThat]
biodb.INFO [2025-10-03 18:26:41.411][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-10-03 18:26:41.411][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 18:26:41.412][biodb::testThat]
biodb.TRACE[2025-10-03 18:26:41.420][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:41.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:41.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.424][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:41.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:41.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.425][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:41.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:41.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-03 18:26:41.444][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 [2025-10-03 18:26:41.445][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:41.447][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-03 18:26:41.447][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-03 18:26:41.453][biodb::testThat]
biodb.INFO [2025-10-03 18:26:41.453][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-10-03 18:26:41.454][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 18:26:41.454][biodb::testThat]
biodb.TRACE[2025-10-03 18:26:41.461][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:41.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:41.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.462][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:41.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:41.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.463][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.468][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.469][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.470][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.471][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-03 18:26:41.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-03 18:26:41.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.472][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-03 18:26:41.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-03 18:26:41.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.473][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-03 18:26:41.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-03 18:26:41.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.474][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-03 18:26:41.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-03 18:26:41.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.481][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:41.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:41.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.482][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:41.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:41.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.483][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.484][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:41.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.486][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.487][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:41.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.488][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-03 18:26:41.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-03 18:26:41.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.489][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-03 18:26:41.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-03 18:26:41.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.490][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-03 18:26:41.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-03 18:26:41.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:41.491][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-03 18:26:41.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-03 18:26:41.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:41.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-03 18:26:41.494][biodb::testThat]
biodb.INFO [2025-10-03 18:26:41.494][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-10-03 18:26:41.495][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 18:26:41.495][biodb::testThat]
biodb.INFO [2025-10-03 18:26:41.498][biodb::testThat]
biodb.INFO [2025-10-03 18:26:41.498][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-10-03 18:26:41.498][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 18:26:41.498][biodb::testThat]
biodb.INFO [2025-10-03 18:26:41.501][biodb::testThat]
biodb.INFO [2025-10-03 18:26:41.501][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-10-03 18:26:41.501][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 18:26:41.502][biodb::testThat]
biodb.DEBUG[2025-10-03 18:26:41.503][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-10-03 18:26:42.411][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-10-03 18:26:43.595][biodb::testThat]
biodb.INFO [2025-10-03 18:26:43.596][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-10-03 18:26:43.596][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 18:26:43.596][biodb::testThat]
biodb.TRACE[2025-10-03 18:26:43.598][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:43.599][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:43.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.599][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.600][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:43.600][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:43.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.600][ef$get] fields variable is a list.
biodb.INFO [2025-10-03 18:26:43.601][biodb::testThat]
biodb.INFO [2025-10-03 18:26:43.601][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-10-03 18:26:43.601][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 18:26:43.602][biodb::testThat]
biodb.TRACE[2025-10-03 18:26:43.605][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:43.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:43.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.606][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:43.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:43.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.607][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:43.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:43.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-03 18:26:43.644][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 [2025-10-03 18:26:43.645][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:43.646][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-03 18:26:43.646][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-03 18:26:43.674][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 [2025-10-03 18:26:43.675][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:43.676][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-03 18:26:43.676][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-03 18:26:43.681][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-03 18:26:43.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-03 18:26:43.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.683][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.684][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.685][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.687][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.688][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-03 18:26:43.691][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 [2025-10-03 18:26:43.692][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:43.693][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-03 18:26:43.694][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 18:26:43.695][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:43.695][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:43.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:43.697][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:43.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:43.698][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:43.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:43.698][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-10-03 18:26:43.716][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 18:26:43.717][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 18:26:43.719][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-10-03 18:26:43.719][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 18:26:43.720][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 18:26:43.720][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 18:26:43.721][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:43.721][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:43.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:43.723][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:43.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:43.724][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:43.724][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[2025-10-03 18:26:43.725][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.725][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.726][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.727][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:43.727][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:43.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.728][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.728][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:43.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:43.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.730][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:43.730][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:43.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.730][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.731][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:43.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:43.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.732][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:43.732][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:43.733][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.733][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.733][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:43.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:43.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.734][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:43.735][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:43.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.735][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.736][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:43.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:43.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.737][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:43.737][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:43.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.738][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.738][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:43.738][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.738][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.739][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.739][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:43.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.740][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:43.740][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:43.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.741][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.741][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:43.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:43.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.743][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:43.743][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:43.743][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.746][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.747][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:43.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:43.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.748][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:43.748][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:43.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.749][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.749][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:43.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:43.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.750][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:43.751][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:43.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.751][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.752][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:43.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:43.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.753][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.754][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.755][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.756][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.760][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:43.764][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-10-03 18:26:43.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.768][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.769][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-03 18:26:43.771][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 18:26:43.772][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:43.773][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-03 18:26:43.774][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 18:26:43.779][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:43.783][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:43.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:43.785][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:43.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:43.786][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:43.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:43.787][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.788][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.789][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:43.790][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:43.791][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:43.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:43.793][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:43.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:43.794][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:43.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:43.794][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-10-03 18:26:43.795][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 18:26:43.795][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 18:26:43.797][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-10-03 18:26:43.797][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 18:26:43.797][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 18:26:43.798][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 18:26:43.799][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:43.799][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:43.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:43.801][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:43.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:43.802][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:43.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:43.803][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.803][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.803][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.805][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:43.805][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:43.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.806][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.806][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:43.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:43.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.807][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:43.808][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:43.808][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.808][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.808][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:43.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:43.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.810][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:43.810][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:43.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.810][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.811][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:43.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:43.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.812][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:43.812][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:43.812][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.813][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.813][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:43.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:43.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.814][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:43.814][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:43.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.815][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.815][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:43.815][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.816][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.816][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:43.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.817][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:43.818][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:43.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.818][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.819][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:43.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:43.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.822][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:43.823][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:43.823][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.823][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.824][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:43.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:43.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.825][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:43.825][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:43.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.826][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.826][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:43.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:43.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.827][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:43.827][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:43.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.828][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.828][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:43.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:43.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.830][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.833][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:43.840][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-10-03 18:26:43.840][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.841][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.843][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-03 18:26:43.850][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 [2025-10-03 18:26:43.851][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:43.852][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-03 18:26:43.852][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 18:26:43.853][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:43.854][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:43.854][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:43.856][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:43.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:43.859][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:43.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:43.859][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.860][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.862][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:43.863][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:43.863][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:43.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:43.865][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:43.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:43.865][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:43.866][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[2025-10-03 18:26:43.866][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-10-03 18:26:43.866][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 18:26:43.867][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 18:26:43.868][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-10-03 18:26:43.868][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 18:26:43.869][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 18:26:43.869][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 18:26:43.869][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:43.870][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:43.870][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:43.872][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:43.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:43.872][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:43.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:43.874][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.874][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.874][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.875][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.876][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:43.876][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:43.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.877][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.877][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:43.877][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:43.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.878][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.878][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:43.879][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:43.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.879][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.879][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:43.880][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:43.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.880][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.881][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:43.881][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:43.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.881][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.882][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:43.882][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.883][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.883][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:43.883][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:43.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.884][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.884][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:43.884][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:43.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.885][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.885][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:43.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:43.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.886][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:43.887][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:43.887][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.887][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.887][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:43.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:43.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.888][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:43.889][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:43.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.889][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.890][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.896][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.899][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:43.904][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-10-03 18:26:43.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.906][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.907][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.908][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.909][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:43.910][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:43.911][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:43.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:43.913][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:43.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:43.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:43.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:43.914][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-10-03 18:26:43.914][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 18:26:43.915][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 18:26:43.916][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-10-03 18:26:43.917][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 18:26:43.917][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 18:26:43.917][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 18:26:43.918][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:43.918][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:43.918][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:43.920][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:43.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:43.921][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:43.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:43.922][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.922][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.922][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.923][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.924][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:43.924][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:43.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.925][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.925][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:43.926][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:43.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.926][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.927][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:43.927][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:43.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.927][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.928][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:43.928][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:43.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.928][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.929][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:43.929][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:43.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.932][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.932][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:43.933][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.933][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.934][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:43.934][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:43.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.934][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.935][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:43.935][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:43.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.936][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.936][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:43.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:43.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.937][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:43.938][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:43.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.938][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.939][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:43.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:43.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.940][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:43.940][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:43.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.941][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.942][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.944][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.946][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:43.952][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-10-03 18:26:43.952][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.953][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.955][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.956][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.957][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:43.958][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:43.958][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:43.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:43.961][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:43.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:43.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:43.961][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[2025-10-03 18:26:43.962][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-10-03 18:26:43.962][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 18:26:43.962][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 18:26:43.964][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-10-03 18:26:43.964][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 18:26:43.965][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 18:26:43.965][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 18:26:43.968][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:43.969][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:43.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:43.971][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:43.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:43.972][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:43.972][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[2025-10-03 18:26:43.973][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.973][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.974][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.975][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:43.976][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:43.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.976][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.976][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:43.977][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:43.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.977][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.978][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:43.978][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:43.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.978][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.979][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:43.979][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:43.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.980][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.980][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:43.980][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:43.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.981][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.981][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:43.981][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:43.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.982][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.982][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:43.982][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:43.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.983][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.983][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:43.984][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:43.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.984][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.985][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:43.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:43.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.986][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:43.986][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:43.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.987][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.987][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:43.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:43.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.988][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:43.988][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:43.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.989][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.989][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.992][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:43.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.995][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.997][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:43.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:43.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:43.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:43.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.003][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-10-03 18:26:44.003][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.005][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.006][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.007][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.008][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.009][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.009][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.012][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:44.013][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-10-03 18:26:44.013][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 18:26:44.014][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 18:26:44.016][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-10-03 18:26:44.016][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 18:26:44.016][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 18:26:44.017][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 18:26:44.017][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.018][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.020][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.020][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:44.022][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.022][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.022][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.023][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.024][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.025][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.025][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.025][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.027][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.027][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.027][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.028][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.029][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.029][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.030][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.030][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.032][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.032][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.032][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.033][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.034][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.034][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.035][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.035][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.036][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.037][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.037][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.037][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.039][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.048][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.048][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.050][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.050][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.051][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.051][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.053][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.053][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.053][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.053][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.054][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.055][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.055][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.056][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.056][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.057][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.060][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.061][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.068][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-10-03 18:26:44.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.070][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.071][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.072][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.073][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.073][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.075][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.075][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.076][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.DEBUG[2025-10-03 18:26:44.076][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-10-03 18:26:44.076][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 18:26:44.077][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 18:26:44.079][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-10-03 18:26:44.079][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 18:26:44.079][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 18:26:44.080][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 18:26:44.080][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.080][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.082][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.086][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:44.087][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.087][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.088][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.090][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.090][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.091][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.091][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.092][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.092][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.093][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.094][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.095][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.095][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.096][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.096][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.097][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.097][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.098][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.098][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.099][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.100][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.100][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.100][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.101][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.102][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.102][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.103][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.104][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.104][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.104][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.105][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.106][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.106][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.107][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.107][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.108][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.108][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.109][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.109][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.110][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.111][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.111][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.112][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.113][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.117][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.130][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.133][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-10-03 18:26:44.133][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.134][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.136][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.137][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.138][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.140][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:44.141][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-10-03 18:26:44.141][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 18:26:44.142][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 18:26:44.143][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-10-03 18:26:44.144][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 18:26:44.144][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 18:26:44.144][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 18:26:44.145][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.145][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.147][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.148][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.148][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:44.149][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.149][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.150][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.151][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.152][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.152][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.153][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.154][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.154][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.154][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.155][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.156][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.157][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.157][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.158][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.159][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.159][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.159][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.160][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.161][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.161][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.162][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.162][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.162][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.166][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.166][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.167][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.168][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.168][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.169][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.170][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.170][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.171][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.171][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.172][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.172][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.173][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.173][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.174][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.175][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.175][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.175][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.176][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.177][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.179][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.188][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-10-03 18:26:44.188][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.189][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.190][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.191][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.192][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.192][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.194][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.194][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:44.195][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-10-03 18:26:44.195][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 18:26:44.196][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 18:26:44.197][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-10-03 18:26:44.198][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 18:26:44.198][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 18:26:44.199][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 18:26:44.199][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.199][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.205][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.206][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:44.207][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.207][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.208][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.209][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.210][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.210][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.210][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.212][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.212][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.213][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.213][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.214][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.215][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.215][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.215][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.217][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.217][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.218][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.218][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.219][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.219][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.220][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.220][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.221][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.221][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.221][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.223][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.223][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.223][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.224][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.225][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.225][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.226][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.226][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.227][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.227][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.228][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.228][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.229][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.230][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.230][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.231][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.232][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.233][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.239][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.246][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-10-03 18:26:44.247][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.248][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.249][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.250][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.250][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.250][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.252][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.253][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:44.253][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-10-03 18:26:44.254][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 18:26:44.254][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 18:26:44.256][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-10-03 18:26:44.256][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 18:26:44.256][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 18:26:44.257][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 18:26:44.257][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.258][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.259][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.261][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.261][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:44.262][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.262][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.263][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.265][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.265][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.265][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.266][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.267][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.267][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.268][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.268][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.269][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.270][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.270][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.270][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.272][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.272][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.273][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.273][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.274][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.274][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.275][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.278][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.279][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.280][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.280][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.281][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.281][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.282][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.284][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.284][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.284][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.285][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.286][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.286][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.287][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.287][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.289][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.289][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.290][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.290][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.291][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.294][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.302][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-10-03 18:26:44.302][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.304][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.305][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.306][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.306][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.308][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.309][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.309][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.DEBUG[2025-10-03 18:26:44.310][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-10-03 18:26:44.310][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 18:26:44.310][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 18:26:44.312][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-10-03 18:26:44.312][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 18:26:44.313][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 18:26:44.315][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 18:26:44.316][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.316][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.318][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.319][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:44.320][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.320][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.321][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.323][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.323][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.324][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.324][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.325][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.325][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.326][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.326][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.327][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.328][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.328][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.328][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.330][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.330][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.330][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.331][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.332][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.332][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.333][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.333][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.333][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.334][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.334][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.336][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.336][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.336][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.337][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.338][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.338][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.338][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.339][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.339][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.340][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.341][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.341][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.342][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.343][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.343][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.344][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.344][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.345][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.346][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.351][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.360][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-10-03 18:26:44.360][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.361][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.362][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.363][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.364][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.364][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.366][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.366][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:44.367][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-10-03 18:26:44.367][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 18:26:44.368][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 18:26:44.369][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-10-03 18:26:44.370][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 18:26:44.370][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 18:26:44.370][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 18:26:44.371][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.371][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.371][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.373][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.374][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:44.375][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.375][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.376][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.376][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.377][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.377][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.378][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.378][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.379][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.380][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.380][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.381][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.382][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.382][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.382][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.383][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.384][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.384][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.385][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.385][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.389][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.390][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.390][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.391][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.391][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.392][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.392][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.393][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.394][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.394][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.394][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.394][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.396][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.396][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.396][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.397][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.398][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.398][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.399][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.399][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.401][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.401][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.401][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.402][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.404][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.406][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.413][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.415][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-10-03 18:26:44.415][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.416][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.417][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.418][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.418][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.421][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.421][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:44.422][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-10-03 18:26:44.424][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 18:26:44.425][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 18:26:44.426][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-10-03 18:26:44.427][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 18:26:44.427][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 18:26:44.427][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 18:26:44.428][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.428][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.429][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.430][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.431][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:44.432][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.433][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.433][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.433][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.435][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.435][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.435][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.436][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.437][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.437][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.438][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.438][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.439][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.439][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.440][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.440][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.440][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.441][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.441][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.442][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.442][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.442][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.443][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.443][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.444][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.445][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.445][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.445][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.445][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.446][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.447][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.447][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.448][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.448][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.449][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.449][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.450][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.450][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.451][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.452][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.452][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.452][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.453][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.467][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-10-03 18:26:44.467][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.468][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.469][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.470][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.471][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.471][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.473][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.474][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:44.474][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-10-03 18:26:44.475][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 18:26:44.475][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 18:26:44.476][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-10-03 18:26:44.476][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 18:26:44.477][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 18:26:44.477][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 18:26:44.478][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.478][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.478][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.480][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.481][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:44.482][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.482][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.483][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.484][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.484][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.485][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.485][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.487][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.487][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.487][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.487][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.488][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.489][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.489][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.490][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.490][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.490][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.491][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.491][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.491][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.492][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.492][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.493][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.493][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.493][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.493][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.495][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.498][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.499][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.499][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.500][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.501][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.501][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.502][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.503][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.503][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.504][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.504][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.505][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.505][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.506][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.506][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.507][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.509][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.517][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-10-03 18:26:44.517][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.518][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.519][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.521][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.521][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.521][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.523][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.524][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:44.524][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-10-03 18:26:44.525][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 18:26:44.525][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 18:26:44.527][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-10-03 18:26:44.527][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 18:26:44.527][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 18:26:44.528][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 18:26:44.528][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.529][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.531][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.531][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:44.535][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.536][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.536][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.538][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.538][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.539][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.539][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.540][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.541][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.541][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.542][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.543][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.543][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.543][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.544][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.545][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.545][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.546][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.546][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.547][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.548][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.548][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.548][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.549][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.549][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.550][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.551][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.551][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.552][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.552][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.553][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.553][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.554][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.554][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.555][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.556][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.556][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.557][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.558][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.558][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.559][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.559][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.560][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.563][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.565][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.570][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.574][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-10-03 18:26:44.574][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.575][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.576][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.577][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.577][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.577][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.579][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.580][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:44.580][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-10-03 18:26:44.581][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 18:26:44.581][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 18:26:44.583][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-10-03 18:26:44.583][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 18:26:44.583][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 18:26:44.584][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 18:26:44.584][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.584][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.586][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.587][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:44.588][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.588][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.589][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.589][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.590][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.591][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.591][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.591][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.593][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.593][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.593][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.594][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.595][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.595][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.596][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.596][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.597][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.597][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.598][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.598][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.599][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.599][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.600][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.600][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.600][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.601][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.601][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.605][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.605][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.606][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.607][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.608][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.608][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.608][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.609][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.610][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.610][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.611][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.611][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.612][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.612][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.613][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.613][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.617][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.625][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-10-03 18:26:44.625][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.626][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.627][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.628][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.628][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.629][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.630][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.631][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:44.631][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-10-03 18:26:44.632][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 18:26:44.632][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 18:26:44.634][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-10-03 18:26:44.634][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 18:26:44.634][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 18:26:44.635][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 18:26:44.635][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.635][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:44.642][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.642][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.643][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.644][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.644][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.645][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.645][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.646][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.647][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.647][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.648][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.649][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.649][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.649][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.650][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.651][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.651][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.652][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.652][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.653][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.654][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.654][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.654][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.655][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.655][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.656][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.657][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.657][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.658][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.659][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.660][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.660][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.660][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.661][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.662][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.662][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.662][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.663][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.664][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.664][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.665][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.665][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.666][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.667][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.670][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.681][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-10-03 18:26:44.682][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.683][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.684][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.685][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.688][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:44.689][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-10-03 18:26:44.689][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 18:26:44.689][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 18:26:44.691][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-10-03 18:26:44.691][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 18:26:44.692][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 18:26:44.692][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 18:26:44.692][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.693][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.695][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.695][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:44.697][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.697][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.698][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.699][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.700][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.700][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.700][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.700][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.702][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.702][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.703][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.703][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.704][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.705][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.705][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.705][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.705][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.707][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.707][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.707][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.708][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.711][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.712][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.713][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.713][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.714][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.714][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.714][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.716][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.716][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.716][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.717][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.718][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.718][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.719][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.719][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.720][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.720][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.721][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.721][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.722][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.723][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.723][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.724][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.725][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.736][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-10-03 18:26:44.737][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.738][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.739][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.740][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.741][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.743][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.743][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.744][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[2025-10-03 18:26:44.744][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-10-03 18:26:44.747][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 18:26:44.748][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 18:26:44.749][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-10-03 18:26:44.750][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 18:26:44.750][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 18:26:44.750][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 18:26:44.751][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.751][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.753][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.754][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.754][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.TRACE[2025-10-03 18:26:44.755][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.755][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.756][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.757][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.757][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.758][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.758][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.759][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.759][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.760][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.760][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.760][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.761][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.762][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.762][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.762][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.764][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.764][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.764][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.765][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.766][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.766][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.767][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.767][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.767][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.768][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.768][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.769][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.770][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.770][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.771][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.772][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.772][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.773][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.773][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.774][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.774][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.775][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.775][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.777][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.777][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.777][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.778][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.785][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.793][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-10-03 18:26:44.794][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.795][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.796][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.797][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.797][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.798][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.800][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.800][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:44.801][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-10-03 18:26:44.801][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 18:26:44.802][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 18:26:44.803][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-10-03 18:26:44.803][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 18:26:44.804][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 18:26:44.804][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 18:26:44.805][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.805][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.805][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.807][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.807][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:44.808][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.809][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.809][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.811][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.811][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.811][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.812][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.814][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.814][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.815][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.815][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.817][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.817][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.817][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.818][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.823][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.823][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.824][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.824][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.825][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.826][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.826][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.827][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.827][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.828][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.828][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.829][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.830][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.830][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.830][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.832][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.832][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.832][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.832][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.833][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.834][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.834][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.834][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.835][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.835][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.836][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.836][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.837][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.837][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.837][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.838][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.840][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.843][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.851][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-10-03 18:26:44.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.853][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.854][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.855][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.855][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.860][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.861][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:44.862][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-10-03 18:26:44.862][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 18:26:44.862][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 18:26:44.864][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-10-03 18:26:44.864][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 18:26:44.864][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 18:26:44.865][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 18:26:44.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.866][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.867][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.868][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:44.869][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.869][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.870][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.870][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.872][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.872][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.872][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.873][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:44.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:44.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.874][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.874][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.875][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.875][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:44.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:44.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.877][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.877][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.878][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.878][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:44.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:44.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.879][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.879][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.880][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.880][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:44.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.881][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.882][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:44.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.882][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.882][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.883][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.883][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.884][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:44.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.885][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.885][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.886][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.886][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:44.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.887][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.887][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.888][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.889][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:44.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:44.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.890][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.890][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.891][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.891][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:44.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:44.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.892][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.892][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.893][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.893][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:44.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:44.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.898][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.899][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.901][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:44.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.904][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:44.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:44.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.909][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-10-03 18:26:44.909][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.910][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.911][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-03 18:26:44.919][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 18:26:44.920][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:44.921][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-03 18:26:44.922][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 18:26:44.923][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.923][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.926][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:44.926][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.928][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.929][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.930][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.930][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.931][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.932][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.933][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:44.936][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.938][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.939][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.940][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.941][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.943][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.943][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.945][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.945][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:44.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.947][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.948][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.949][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.952][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.952][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.954][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.954][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:44.955][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.956][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.957][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.959][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.961][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.961][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.961][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.963][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.964][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:44.964][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.965][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.967][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.968][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.968][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.970][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:44.974][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.975][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.976][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.977][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.978][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.978][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.980][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.980][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:44.981][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.982][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.983][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.984][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.984][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.986][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.987][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:44.987][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.990][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.991][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.991][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.993][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:44.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:44.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:44.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:44.994][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.995][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:44.996][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:44.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:44.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:44.997][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:44.997][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:44.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:44.999][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.000][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.000][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.002][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.003][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.004][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.004][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.006][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.009][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.010][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.011][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.013][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.014][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.016][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.017][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.017][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.018][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.019][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.021][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.023][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.023][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.024][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.025][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.026][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.027][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.028][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.030][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.030][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.031][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.032][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.033][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.034][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.034][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.036][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.037][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.037][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.040][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.041][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.041][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.043][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.046][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.047][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.049][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.050][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.051][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.054][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.054][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.055][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.056][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.057][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.058][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.058][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.061][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.062][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.063][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.064][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.065][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.065][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.067][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.068][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.069][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.071][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.072][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.072][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.073][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.075][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.075][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.076][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.077][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.078][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.088][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.093][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-03 18:26:45.103][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 18:26:45.104][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:45.105][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-10-03 18:26:45.105][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-03 18:26:45.106][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 18:26:45.107][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:45.108][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-10-03 18:26:45.109][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 18:26:45.110][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.110][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.112][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.113][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:45.113][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-10-03 18:26:45.114][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 18:26:45.114][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 18:26:45.116][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-10-03 18:26:45.116][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 18:26:45.117][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 18:26:45.117][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 18:26:45.117][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.118][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.118][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.120][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.120][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.121][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:45.122][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:45.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.122][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:45.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:45.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.124][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:45.124][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:45.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.127][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.128][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:45.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:45.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.129][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:45.130][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:45.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.130][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.131][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:45.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:45.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.132][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:45.132][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:45.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.133][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.133][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:45.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:45.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.135][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:45.135][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:45.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.136][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.136][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:45.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:45.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.137][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:45.137][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:45.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.138][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.138][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:45.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:45.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.139][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:45.140][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.140][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.140][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:45.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.141][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.142][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.142][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.143][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.144][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:45.144][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:45.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.144][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.145][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:45.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:45.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.146][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:45.146][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:45.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.147][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.147][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:45.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:45.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.148][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:45.149][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:45.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.149][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.150][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:45.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:45.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.151][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:45.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:45.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.154][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:45.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:45.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:45.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:45.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:45.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:45.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:45.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:45.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:45.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:45.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:45.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:45.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.165][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-10-03 18:26:45.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.166][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.168][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.168][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.170][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.171][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.172][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.173][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.174][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.175][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.175][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.176][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.177][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.178][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.178][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[2025-10-03 18:26:45.178][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-10-03 18:26:45.179][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 18:26:45.179][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 18:26:45.181][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-10-03 18:26:45.181][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 18:26:45.181][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 18:26:45.182][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 18:26:45.182][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.182][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.184][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.185][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.186][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:45.186][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:45.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.187][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:45.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:45.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.188][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:45.189][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:45.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.189][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.189][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:45.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:45.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.190][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:45.191][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:45.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.191][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.192][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:45.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:45.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.193][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:45.193][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:45.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.194][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.194][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:45.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:45.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.195][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:45.198][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:45.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.199][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.199][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:45.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:45.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.200][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:45.201][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:45.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.201][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.202][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:45.202][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.202][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.203][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:45.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.204][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.204][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.205][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.206][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:45.207][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:45.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.207][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.208][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:45.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:45.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.209][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:45.209][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:45.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.210][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.210][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:45.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:45.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.212][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:45.213][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:45.213][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.213][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.214][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:45.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:45.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.215][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:45.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:45.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.222][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:45.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:45.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:45.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:45.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:45.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:45.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:45.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:45.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:45.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:45.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:45.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:45.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.229][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-10-03 18:26:45.229][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.232][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-03 18:26:45.243][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 18:26:45.244][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:45.245][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-03 18:26:45.245][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 18:26:45.246][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.246][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.249][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.249][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.251][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.253][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.255][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.255][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.255][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.257][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.258][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.260][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.261][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.262][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.263][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.264][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.266][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.266][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.268][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.269][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.270][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.271][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.272][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.272][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.273][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.275][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.278][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.283][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.285][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.286][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.288][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.290][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.291][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.292][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.292][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.293][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.294][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.295][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.295][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.297][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.298][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.299][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.299][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.301][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.302][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.303][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.305][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.306][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.306][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.308][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.309][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.309][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.310][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.312][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.316][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.317][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.319][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.320][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.320][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.322][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.323][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.324][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.325][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.325][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.327][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.327][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.329][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.330][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.332][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.332][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.335][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.335][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.337][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.338][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.340][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.340][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.342][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.342][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.343][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.343][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.345][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.347][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.347][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.349][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.350][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.350][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.352][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.359][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.359][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.361][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.362][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.363][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.365][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.366][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.367][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.367][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.370][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.374][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.376][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.376][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.376][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.378][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.378][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.379][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.380][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.381][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.383][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.383][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.383][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.385][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.387][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.391][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.391][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.393][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.394][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.395][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.396][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.397][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.403][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.404][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.406][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.407][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.408][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.409][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.410][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.411][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.411][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.414][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.415][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.416][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.417][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-03 18:26:45.425][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 18:26:45.426][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:45.427][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-03 18:26:45.427][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 18:26:45.429][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.429][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.429][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.431][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.432][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.432][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.434][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.435][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.436][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.436][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.436][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.438][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.439][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.439][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.447][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.448][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.450][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.450][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.450][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.453][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.453][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.454][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.455][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.458][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.460][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.460][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.460][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.462][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.462][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.463][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.465][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.466][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.469][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.469][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.471][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.471][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.472][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.474][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.475][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.476][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.476][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.478][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.478][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.479][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.482][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.484][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.485][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.485][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.487][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.488][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.489][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.491][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.492][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.492][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.494][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.494][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.495][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.496][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.497][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.498][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.499][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.501][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.501][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.502][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.503][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.504][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.505][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.506][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.506][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.508][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.508][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.509][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.510][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.511][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.512][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.513][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.514][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.515][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.516][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.520][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.522][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.523][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.523][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.525][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.526][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.527][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.528][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.530][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.530][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.532][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.533][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.533][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.535][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.537][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.537][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.537][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.539][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.539][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.540][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.541][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.543][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.543][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.545][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.546][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.546][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.548][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.549][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.550][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.550][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.552][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.553][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.556][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.558][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.560][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.561][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.563][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.564][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.568][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.568][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.569][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.570][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.571][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.575][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.575][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.578][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.578][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.580][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.581][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.585][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.586][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.586][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.587][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.588][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.597][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-03 18:26:45.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-03 18:26:45.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-03 18:26:45.602][biodb::testThat]
biodb.INFO [2025-10-03 18:26:45.602][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-10-03 18:26:45.602][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 18:26:45.603][biodb::testThat]
biodb.TRACE[2025-10-03 18:26:45.604][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-03 18:26:45.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-03 18:26:45.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.605][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.607][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.608][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.610][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.610][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.613][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.613][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-03 18:26:45.614][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 18:26:45.615][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:45.616][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-03 18:26:45.616][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 18:26:45.617][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.617][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.619][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.619][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.620][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.621][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.622][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-03 18:26:45.623][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 18:26:45.624][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:45.625][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-03 18:26:45.625][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 18:26:45.626][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.626][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.628][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.628][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.629][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.630][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.706][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.707][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.707][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.709][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.710][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.710][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.711][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.712][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.714][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-03 18:26:45.714][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.714][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.716][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.717][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.717][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.719][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.720][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 18:26:45.720][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 18:26:45.720][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 18:26:45.720][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.721][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.721][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.721][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.722][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.722][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.722][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.723][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.723][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.723][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.724][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.724][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.724][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 18:26:45.725][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.730][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-03 18:26:45.731][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.731][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.733][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.733][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.733][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.TRACE[2025-10-03 18:26:45.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.735][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.736][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.736][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 18:26:45.736][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 18:26:45.736][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 18:26:45.737][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.737][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.737][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.738][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.738][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.738][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.738][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.739][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.739][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.739][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.739][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.740][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.740][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.740][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 18:26:45.741][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.742][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.743][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.744][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-03 18:26:45.745][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.745][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.747][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.747][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.749][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.750][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.751][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 18:26:45.751][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 18:26:45.751][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 18:26:45.751][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.752][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.752][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.752][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.752][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.753][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.753][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.754][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.754][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.754][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.754][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.755][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.755][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.756][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 18:26:45.756][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.757][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.760][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-03 18:26:45.760][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-03 18:26:45.760][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-03 18:26:45.764][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.765][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.767][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.789][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.789][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.792][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.792][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-03 18:26:45.794][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 18:26:45.795][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:45.796][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-03 18:26:45.796][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-03 18:26:45.797][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 18:26:45.798][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:45.799][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-03 18:26:45.799][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 18:26:45.800][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.801][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.803][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.804][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.805][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.809][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.810][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.810][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.811][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.812][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.813][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.813][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.815][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.816][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.817][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.817][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.819][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.819][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.820][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.821][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.822][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.831][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-03 18:26:45.838][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.838][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.840][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.841][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.842][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.844][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.844][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 18:26:45.844][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 18:26:45.844][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 18:26:45.844][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.845][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.845][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.846][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.846][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.846][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.847][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.847][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.847][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.847][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.848][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.848][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.848][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 18:26:45.849][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.850][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.851][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.852][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-03 18:26:45.852][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.852][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.853][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.854][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.855][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.859][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.860][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.868][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.868][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 18:26:45.868][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 18:26:45.869][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 18:26:45.869][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.869][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.869][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.870][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.870][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.870][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.870][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.871][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.871][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.874][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.875][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.875][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.877][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.877][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 18:26:45.878][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.879][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.880][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.881][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-03 18:26:45.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.882][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.884][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.885][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.885][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.886][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.888][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.888][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 18:26:45.888][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 18:26:45.888][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 18:26:45.889][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.889][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.889][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.890][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.890][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.890][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.891][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.891][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.891][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.891][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.892][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.892][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.892][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.892][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.893][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 18:26:45.893][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.896][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.899][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-03 18:26:45.900][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-03 18:26:45.900][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-03 18:26:45.903][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-03 18:26:45.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-03 18:26:45.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-03 18:26:45.905][biodb::testThat]
biodb.INFO [2025-10-03 18:26:45.906][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-10-03 18:26:45.906][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 18:26:45.906][biodb::testThat]
biodb.TRACE[2025-10-03 18:26:45.907][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-03 18:26:45.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-03 18:26:45.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.908][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.909][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.910][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.911][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.913][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.913][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.915][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.916][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-03 18:26:45.917][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 18:26:45.918][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:45.918][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-03 18:26:45.919][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 18:26:45.919][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.920][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.922][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.922][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.923][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.924][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.925][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-03 18:26:45.926][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 18:26:45.927][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:45.928][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-03 18:26:45.928][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 18:26:45.929][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.929][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.931][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.931][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.932][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.933][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.934][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.936][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.936][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.938][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.938][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.939][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.940][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.941][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:45.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.943][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-03 18:26:45.943][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.943][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.945][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.946][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.946][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.947][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.948][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.948][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 18:26:45.949][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 18:26:45.949][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 18:26:45.949][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.949][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.950][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.950][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.950][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.951][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.951][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.952][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.952][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.952][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.953][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.953][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.953][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 18:26:45.954][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.956][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.957][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-03 18:26:45.957][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.958][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.958][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.960][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.961][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.963][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.964][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 18:26:45.964][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 18:26:45.964][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 18:26:45.964][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.965][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.965][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.965][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.966][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.966][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.967][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.967][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.967][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.968][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.968][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.968][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.969][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.969][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 18:26:45.969][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.971][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.972][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-03 18:26:45.973][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.973][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.973][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:45.975][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:45.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:45.976][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:45.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:45.976][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.977][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.978][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.979][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 18:26:45.979][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 18:26:45.979][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 18:26:45.979][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.980][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.980][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.980][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.981][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.981][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.981][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.982][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.982][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:45.982][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.982][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.983][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.983][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 18:26:45.983][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.986][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:45.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.987][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-03 18:26:45.987][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-03 18:26:45.987][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-03 18:26:45.990][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.991][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.992][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:45.993][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:45.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:45.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:45.998][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:45.998][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:45.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.000][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.000][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-03 18:26:46.002][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 18:26:46.002][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:46.003][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-03 18:26:46.003][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-03 18:26:46.004][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 18:26:46.005][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:46.006][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-03 18:26:46.006][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 18:26:46.007][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.007][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.007][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.009][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.010][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:46.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.011][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.012][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:46.013][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.014][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.015][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.016][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:46.017][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.019][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:46.020][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.020][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.020][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.022][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.022][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:46.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.025][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:46.026][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-03 18:26:46.027][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.027][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.029][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.029][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:46.030][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.032][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.032][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 18:26:46.032][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 18:26:46.033][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 18:26:46.033][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.033][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.033][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.034][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.034][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.035][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.035][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.035][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.036][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.036][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.036][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.037][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.037][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 18:26:46.037][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.038][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.039][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.040][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-03 18:26:46.041][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.041][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.043][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.043][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:46.044][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.046][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.046][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 18:26:46.046][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 18:26:46.047][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 18:26:46.047][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.047][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.047][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.048][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.048][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.048][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.049][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.049][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.049][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.050][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.050][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.050][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.051][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 18:26:46.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.052][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.053][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.054][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-03 18:26:46.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.057][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:46.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.059][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.060][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.060][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 18:26:46.060][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 18:26:46.061][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 18:26:46.061][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.061][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.061][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.062][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.062][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.062][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.063][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.063][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.063][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.064][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.064][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.064][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.064][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.065][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 18:26:46.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.066][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.067][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.068][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-03 18:26:46.068][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-03 18:26:46.068][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-03 18:26:46.071][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-03 18:26:46.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-03 18:26:46.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-03 18:26:46.073][biodb::testThat]
biodb.INFO [2025-10-03 18:26:46.074][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-10-03 18:26:46.074][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 18:26:46.074][biodb::testThat]
biodb.TRACE[2025-10-03 18:26:46.075][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-03 18:26:46.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-03 18:26:46.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.076][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.077][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.078][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:46.082][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.082][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.082][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.084][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-03 18:26:46.085][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 18:26:46.086][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:46.087][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-03 18:26:46.087][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 18:26:46.088][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.090][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.090][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:46.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.094][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.095][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-03 18:26:46.097][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 18:26:46.098][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:46.098][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-03 18:26:46.099][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 18:26:46.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.100][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.102][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.102][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:46.103][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.104][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.105][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:46.106][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.106][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.107][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.108][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.109][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:46.109][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.111][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:46.112][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-03 18:26:46.113][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.113][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.115][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.115][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:46.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.117][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.118][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.118][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 18:26:46.119][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 18:26:46.119][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 18:26:46.119][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.119][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.120][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.120][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.120][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.120][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.121][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.121][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.121][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.122][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.122][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.122][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.123][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.123][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 18:26:46.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.124][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.125][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.126][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-03 18:26:46.127][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.127][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.129][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.129][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:46.130][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.132][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.132][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 18:26:46.133][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 18:26:46.133][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 18:26:46.133][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.133][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.134][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.134][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.134][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.135][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.135][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.135][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.136][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.136][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.136][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.137][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.137][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 18:26:46.137][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.138][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.140][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-03 18:26:46.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.141][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.143][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.143][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:46.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.146][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.146][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 18:26:46.146][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 18:26:46.147][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 18:26:46.147][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.147][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.147][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.148][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.148][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.149][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.149][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.149][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.150][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.150][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.150][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.151][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.151][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 18:26:46.151][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.153][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.154][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-03 18:26:46.154][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-03 18:26:46.155][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-03 18:26:46.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.163][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.164][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:46.167][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.167][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.167][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.169][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.169][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-03 18:26:46.170][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 18:26:46.171][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:46.172][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-03 18:26:46.172][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-03 18:26:46.173][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-03 18:26:46.174][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:46.174][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-03 18:26:46.175][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 18:26:46.175][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.176][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.176][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.177][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.178][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:46.179][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.180][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:46.182][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.182][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.184][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.184][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:46.185][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.189][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:46.190][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.190][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.192][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.193][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:46.193][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:46.197][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-03 18:26:46.197][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.197][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.199][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.200][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:46.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.202][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.203][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 18:26:46.203][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 18:26:46.203][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 18:26:46.203][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.204][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.204][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.204][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.205][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.205][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.205][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.206][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.206][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.206][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.206][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.207][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.207][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 18:26:46.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.208][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.209][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.210][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-03 18:26:46.211][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.213][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.214][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:46.214][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.215][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.216][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.216][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 18:26:46.217][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 18:26:46.217][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 18:26:46.217][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.217][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.218][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.218][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.218][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.219][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.219][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.219][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.220][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.220][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.220][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.221][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.221][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 18:26:46.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.222][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.223][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.225][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-03 18:26:46.225][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.227][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.228][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:46.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.229][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.230][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.231][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-03 18:26:46.231][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-03 18:26:46.231][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-03 18:26:46.231][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.231][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.232][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.232][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.232][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.232][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.233][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.233][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.234][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.234][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-03 18:26:46.234][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.234][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.235][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.235][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-03 18:26:46.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.236][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.237][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.239][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-03 18:26:46.239][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-03 18:26:46.239][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-03 18:26:46.246][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-03 18:26:46.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-03 18:26:46.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-03 18:26:46.248][biodb::testThat]
biodb.INFO [2025-10-03 18:26:46.248][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-10-03 18:26:46.249][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 18:26:46.249][biodb::testThat]
biodb.DEBUG[2025-10-03 18:26:46.249][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-10-03 18:26:46.250][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 18:26:46.250][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 18:26:46.251][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-10-03 18:26:46.251][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 18:26:46.252][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 18:26:46.252][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 18:26:46.253][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.253][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.253][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.255][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.255][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:46.256][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.257][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.257][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.259][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:46.259][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:46.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.260][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.260][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:46.260][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:46.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.261][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.261][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:46.261][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:46.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.262][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.262][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:46.263][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:46.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.263][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.263][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:46.264][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:46.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.264][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.264][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:46.265][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.265][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.266][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.266][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.266][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.267][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:46.267][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:46.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.267][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.268][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:46.268][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:46.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.268][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.269][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:46.269][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:46.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.270][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.270][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.271][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.273][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:46.283][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-10-03 18:26:46.284][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-10-03 18:26:46.287][biodb::testThat]
biodb.INFO [2025-10-03 18:26:46.287][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-10-03 18:26:46.287][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 18:26:46.288][biodb::testThat]
biodb.DEBUG[2025-10-03 18:26:46.291][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-10-03 18:26:46.292][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-10-03 18:26:46.292][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-10-03 18:26:46.292][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 18:26:46.293][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-10-03 18:26:46.295][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-10-03 18:26:46.296][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-10-03 18:26:46.296][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 18:26:46.297][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-10-03 18:26:46.297][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-10-03 18:26:46.298][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.298][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.300][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.300][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:46.301][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.302][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.302][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.304][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:46.304][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:46.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.305][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.305][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:46.305][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:46.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.306][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.306][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:46.307][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:46.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.307][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.307][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:46.308][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:46.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.308][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.309][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:46.309][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:46.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.310][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.310][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:46.311][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.311][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.312][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.312][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.312][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.313][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:46.313][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:46.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.314][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.314][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:46.314][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:46.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.315][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.315][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:46.316][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:46.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.316][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.316][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.317][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.320][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:46.324][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.324][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.326][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.327][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:46.328][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.328][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.329][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.331][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:46.331][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:46.331][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.331][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.332][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:46.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:46.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.333][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:46.333][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:46.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.334][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.334][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:46.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:46.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.336][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:46.336][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:46.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.336][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.337][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:46.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:46.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.338][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:46.339][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:46.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.341][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.342][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:46.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:46.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.346][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:46.347][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:46.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.347][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.348][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:46.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:46.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.349][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:46.349][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.349][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.350][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:46.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.351][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.351][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.352][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.352][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.353][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:46.353][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:46.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.354][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.354][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:46.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:46.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.355][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:46.356][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:46.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.356][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.357][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:46.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:46.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.358][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:46.358][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:46.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.359][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.359][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:46.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:46.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.360][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:46.368][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.369][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.369][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.371][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:46.372][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.372][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.373][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.374][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:46.375][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:46.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.375][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.376][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:46.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:46.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.377][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:46.377][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:46.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.378][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.378][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:46.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:46.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.379][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:46.379][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:46.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.380][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.380][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:46.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:46.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.381][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:46.381][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:46.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.382][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.382][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:46.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:46.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.383][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:46.384][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:46.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.384][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.384][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:46.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:46.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.386][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:46.386][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.386][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.387][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:46.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:46.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.390][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.391][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.391][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.392][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.393][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:46.393][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:46.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.394][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.394][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:46.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:46.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.395][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:46.396][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:46.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.396][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.396][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:46.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:46.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.397][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:46.398][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:46.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.398][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.399][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:46.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:46.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.400][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.401][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:46.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.413][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:46.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:46.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:46.417][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-10-03 18:26:46.418][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-10-03 18:26:46.418][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-10-03 18:26:46.422][biodb::testThat]
biodb.INFO [2025-10-03 18:26:46.423][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-10-03 18:26:46.423][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 18:26:46.423][biodb::testThat]
biodb.INFO [2025-10-03 18:26:46.432][biodb::testThat]
biodb.INFO [2025-10-03 18:26:46.432][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-10-03 18:26:46.432][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 18:26:46.432][biodb::testThat]
biodb.INFO [2025-10-03 18:26:46.435][biodb::testThat]
biodb.INFO [2025-10-03 18:26:46.436][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-10-03 18:26:46.436][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 18:26:46.436][biodb::testThat]
sched.DEBUG[2025-10-03 18:26:46.437][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-10-03 18:26:46.438][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:46.440][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-10-03 18:26:46.440][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-03 18:26:46.445][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:46.445][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:46.445][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.446][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:46.446][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.446][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:46.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:46.447][ef$get] fields variable is a list.
biodb.INFO [2025-10-03 18:26:46.447][biodb::testThat]
biodb.INFO [2025-10-03 18:26:46.448][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-10-03 18:26:46.448][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 18:26:46.448][biodb::testThat]
biodb.ERROR[2025-10-03 18:26:46.452][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-10-03 18:26:46.457][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-10-03 18:26:46.461][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-03 18:26:46.462][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-03 18:26:46.462][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-03 18:26:46.462][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.463][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.463][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-03 18:26:46.467][biodb::testContext]
biodb.INFO [2025-10-03 18:26:46.467][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-03 18:26:46.468][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-10-03 18:26:46.468][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-03 18:26:46.468][biodb::testContext]
biodb.INFO [2025-10-03 18:26:46.469][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-03 18:26:46.470][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-03 18:26:46.471][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-03 18:26:46.471][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-03 18:26:46.472][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-03 18:26:46.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.473][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-03 18:26:46.473][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-03 18:26:46.473][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.474][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-03 18:26:46.474][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-03 18:26:46.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.475][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-03 18:26:46.476][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-03 18:26:46.476][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-03 18:26:46.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.477][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-03 18:26:46.477][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-03 18:26:46.477][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-03 18:26:46.478][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.478][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-03 18:26:46.479][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-03 18:26:46.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.479][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-03 18:26:46.480][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-03 18:26:46.480][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-03 18:26:46.480][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.481][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-03 18:26:46.481][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-03 18:26:46.481][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.482][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-03 18:26:46.482][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-03 18:26:46.483][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-03 18:26:46.483][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.483][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.DEBUG[2025-10-03 18:26:46.484][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-03 18:26:46.484][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-03 18:26:46.484][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-03 18:26:46.484][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-03 18:26:46.485][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-03 18:26:46.485][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-03 18:26:46.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.486][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-03 18:26:46.486][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-03 18:26:46.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.487][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-03 18:26:46.487][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-03 18:26:46.488][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.491][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-03 18:26:46.491][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-03 18:26:46.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.492][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-03 18:26:46.493][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-03 18:26:46.493][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-03 18:26:46.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.494][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-03 18:26:46.494][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-03 18:26:46.500][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-03 18:26:46.501][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.502][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-03 18:26:46.502][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-03 18:26:46.502][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-03 18:26:46.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.503][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-03 18:26:46.504][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.504][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-03 18:26:46.505][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.505][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 18:26:46.505][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.505][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.506][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.506][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.506][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-03 18:26:46.506][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 18:26:46.507][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.507][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-03 18:26:46.507][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 18:26:46.507][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.508][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.508][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-03 18:26:46.508][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-03 18:26:46.508][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-03 18:26:46.508][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-03 18:26:46.508][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-03 18:26:46.508][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 18:26:46.508][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:46.509][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:46.509][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 18:26:46.509][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:46.509][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:46.510][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.510][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.510][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 18:26:46.510][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 18:26:46.511][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.511][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.511][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-03 18:26:46.512][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.512][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-03 18:26:46.512][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.513][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 18:26:46.513][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.513][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.513][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.514][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.514][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-03 18:26:46.514][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 18:26:46.514][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.515][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-03 18:26:46.515][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 18:26:46.515][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.515][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.516][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-03 18:26:46.516][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-03 18:26:46.516][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-03 18:26:46.516][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-03 18:26:46.516][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-03 18:26:46.516][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 18:26:46.516][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:46.516][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:46.517][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 18:26:46.517][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:46.517][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:46.517][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.518][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.518][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 18:26:46.518][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 18:26:46.518][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.519][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.519][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-03 18:26:46.519][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.520][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-03 18:26:46.520][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.520][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 18:26:46.520][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.521][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.521][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.521][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.521][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-03 18:26:46.522][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 18:26:46.522][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.522][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-03 18:26:46.522][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 18:26:46.523][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.523][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.523][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.523][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 18:26:46.524][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:46.524][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:46.524][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 18:26:46.524][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:46.525][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:46.525][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.525][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.525][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 18:26:46.526][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 18:26:46.526][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.526][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.526][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-03 18:26:46.527][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.527][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-03 18:26:46.527][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.528][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 18:26:46.528][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.528][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.529][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.529][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.529][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-03 18:26:46.529][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 18:26:46.530][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.530][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-03 18:26:46.530][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 18:26:46.531][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.531][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.531][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.531][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 18:26:46.532][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:46.532][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:46.532][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 18:26:46.532][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:46.533][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:46.533][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.533][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.533][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 18:26:46.534][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 18:26:46.534][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.534][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.534][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-03 18:26:46.535][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.535][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.536][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.539][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.540][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.541][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.DEBUG[2025-10-03 18:26:46.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.542][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.545][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[2025-10-03 18:26:46.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.547][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.548][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.552][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.553][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-03 18:26:46.554][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-03 18:26:46.554][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-03 18:26:46.555][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-03 18:26:46.555][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-03 18:26:46.555][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-03 18:26:46.556][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-03 18:26:46.556][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-03 18:26:46.556][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-03 18:26:46.557][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-03 18:26:46.557][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-03 18:26:46.558][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-03 18:26:46.558][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-03 18:26:46.558][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-03 18:26:46.559][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-03 18:26:46.559][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-03 18:26:46.559][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-03 18:26:46.560][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-03 18:26:46.560][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-03 18:26:46.561][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-03 18:26:46.561][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-03 18:26:46.561][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-03 18:26:46.562][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-03 18:26:46.562][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-03 18:26:46.562][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-03 18:26:46.563][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-03 18:26:46.563][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-03 18:26:46.564][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-03 18:26:46.564][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-03 18:26:46.564][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-03 18:26:46.565][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-03 18:26:46.565][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-03 18:26:46.565][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-03 18:26:46.566][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-03 18:26:46.566][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-03 18:26:46.567][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-03 18:26:46.567][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-03 18:26:46.567][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-03 18:26:46.568][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-03 18:26:46.568][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-03 18:26:46.568][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-03 18:26:46.569][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-03 18:26:46.569][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-03 18:26:46.569][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-03 18:26:46.570][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-03 18:26:46.570][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-03 18:26:46.571][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-03 18:26:46.571][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-03 18:26:46.571][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-03 18:26:46.572][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-03 18:26:46.572][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-03 18:26:46.572][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-03 18:26:46.573][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-03 18:26:46.573][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-03 18:26:46.573][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-03 18:26:46.574][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-03 18:26:46.574][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-03 18:26:46.575][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-03 18:26:46.575][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-03 18:26:46.575][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-03 18:26:46.576][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-03 18:26:46.576][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-03 18:26:46.576][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-03 18:26:46.577][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-03 18:26:46.577][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-03 18:26:46.577][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-03 18:26:46.578][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-03 18:26:46.581][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-03 18:26:46.581][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-03 18:26:46.582][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-03 18:26:46.582][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-03 18:26:46.582][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-03 18:26:46.583][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-03 18:26:46.583][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-03 18:26:46.583][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-03 18:26:46.584][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-03 18:26:46.584][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-03 18:26:46.584][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-03 18:26:46.585][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-03 18:26:46.585][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-03 18:26:46.586][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-03 18:26:46.586][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-03 18:26:46.586][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-03 18:26:46.587][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-03 18:26:46.587][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-03 18:26:46.588][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-03 18:26:46.588][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.588][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.590][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.593][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.594][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.596][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[2025-10-03 18:26:46.596][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.597][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.598][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.600][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.602][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.605][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.DEBUG[2025-10-03 18:26:46.605][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.605][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.608][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.610][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.615][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-03 18:26:46.615][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-03 18:26:46.616][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.616][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.616][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.617][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 18:26:46.617][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.617][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.617][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.618][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-03 18:26:46.618][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-03 18:26:46.618][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 18:26:46.618][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.619][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-03 18:26:46.619][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 18:26:46.619][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-03 18:26:46.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-03 18:26:46.619][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-03 18:26:46.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-03 18:26:46.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-03 18:26:46.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-03 18:26:46.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-03 18:26:46.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-03 18:26:46.619][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-03 18:26:46.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-03 18:26:46.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-03 18:26:46.620][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.620][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-03 18:26:46.620][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-03 18:26:46.620][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-03 18:26:46.620][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-03 18:26:46.620][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:46.621][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:46.621][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 18:26:46.621][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:46.621][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:46.622][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.622][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-03 18:26:46.622][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-03 18:26:46.622][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 18:26:46.622][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 18:26:46.623][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.623][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-03 18:26:46.623][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-03 18:26:46.623][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-03 18:26:46.624][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-03 18:26:46.624][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-03 18:26:46.624][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-03 18:26:46.625][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-03 18:26:46.625][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-03 18:26:46.626][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-03 18:26:46.628][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-03 18:26:46.628][biodb::testThat]
biodb.INFO [2025-10-03 18:26:46.629][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-10-03 18:26:46.629][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 18:26:46.629][biodb::testThat]
sched.DEBUG[2025-10-03 18:26:46.630][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-03 18:26:46.631][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:46.633][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-03 18:26:46.633][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-03 18:26:46.634][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 [2025-10-03 18:26:46.635][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:46.636][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-03 18:26:46.636][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 18:26:46.636][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.637][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.639][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.639][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-03 18:26:46.640][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 [2025-10-03 18:26:46.641][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:46.642][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-03 18:26:46.642][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 18:26:46.643][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.643][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.645][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.645][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.645][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[2025-10-03 18:26:46.651][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.651][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.651][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.653][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.653][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-03 18:26:46.655][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 [2025-10-03 18:26:46.656][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:46.657][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-03 18:26:46.657][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 18:26:46.657][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.658][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.659][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.660][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.660][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".
sched.DEBUG[2025-10-03 18:26:46.661][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 [2025-10-03 18:26:46.661][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:46.662][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-03 18:26:46.662][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 18:26:46.663][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.663][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.665][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.665][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.666][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.666][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.666][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.668][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.668][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.669][FUN] Functions in observer 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[2025-10-03 18:26:46.670][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 [2025-10-03 18:26:46.671][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:46.671][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-03 18:26:46.672][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 18:26:46.672][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.672][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.673][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.677][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.677][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.678][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".
sched.DEBUG[2025-10-03 18:26:46.678][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 [2025-10-03 18:26:46.679][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:46.679][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-03 18:26:46.680][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 18:26:46.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.680][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.682][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.683][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.683][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".
sched.DEBUG[2025-10-03 18:26:46.683][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 [2025-10-03 18:26:46.684][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:46.685][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-10-03 18:26:46.685][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 18:26:46.686][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.686][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.688][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.688][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.688][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.INFO [2025-10-03 18:26:46.690][biodb::testThat]
biodb.INFO [2025-10-03 18:26:46.691][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-10-03 18:26:46.691][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 18:26:46.691][biodb::testThat]
sched.DEBUG[2025-10-03 18:26:46.692][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 [2025-10-03 18:26:46.693][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:46.694][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-10-03 18:26:46.694][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 18:26:46.695][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.695][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.698][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.699][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.699][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-03 18:26:46.700][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 [2025-10-03 18:26:46.701][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:46.702][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-10-03 18:26:46.702][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 18:26:46.703][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:46.703][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.705][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.706][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-03 18:26:46.707][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-03 18:26:46.708][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-03 18:26:46.708][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-03 18:26:46.708][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.709][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.709][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.709][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.INFO [2025-10-03 18:26:46.711][biodb::testContext]
biodb.INFO [2025-10-03 18:26:46.711][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-03 18:26:46.711][biodb::testContext] Test context - Test web services
biodb.INFO [2025-10-03 18:26:46.712][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-03 18:26:46.712][biodb::testContext]
biodb.INFO [2025-10-03 18:26:46.713][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-03 18:26:46.713][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-03 18:26:46.715][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-03 18:26:46.715][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-03 18:26:46.715][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-03 18:26:46.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.716][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-03 18:26:46.717][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-03 18:26:46.717][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.718][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-03 18:26:46.718][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-03 18:26:46.718][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.719][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-03 18:26:46.719][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-03 18:26:46.719][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-03 18:26:46.720][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.720][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-03 18:26:46.721][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-03 18:26:46.721][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-03 18:26:46.721][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.722][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-03 18:26:46.722][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-03 18:26:46.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.723][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-03 18:26:46.723][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-03 18:26:46.724][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-03 18:26:46.724][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.725][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-03 18:26:46.725][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-03 18:26:46.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.727][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-03 18:26:46.727][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-03 18:26:46.727][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-03 18:26:46.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.728][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.728][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-03 18:26:46.728][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-03 18:26:46.729][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-03 18:26:46.729][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-03 18:26:46.729][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-03 18:26:46.729][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-03 18:26:46.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.730][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-03 18:26:46.730][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-03 18:26:46.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.731][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-03 18:26:46.732][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-03 18:26:46.732][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.733][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-03 18:26:46.733][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-03 18:26:46.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.734][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-03 18:26:46.734][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-03 18:26:46.734][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-03 18:26:46.734][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.735][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[2025-10-03 18:26:46.735][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-03 18:26:46.735][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-03 18:26:46.741][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-03 18:26:46.741][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.742][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-03 18:26:46.742][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-03 18:26:46.743][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-03 18:26:46.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.743][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[2025-10-03 18:26:46.744][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-03 18:26:46.744][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.744][self$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[2025-10-03 18:26:46.745][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.745][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 18:26:46.745][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.746][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.746][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.746][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.747][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-03 18:26:46.747][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 18:26:46.747][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.748][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-03 18:26:46.748][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 18:26:46.748][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.748][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.749][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-03 18:26:46.749][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-03 18:26:46.749][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-03 18:26:46.749][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-03 18:26:46.749][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-03 18:26:46.749][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 18:26:46.749][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:46.749][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:46.750][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 18:26:46.750][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:46.750][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:46.750][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.751][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.751][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 18:26:46.751][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 18:26:46.751][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.752][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.752][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-03 18:26:46.753][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.753][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-03 18:26:46.753][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.753][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 18:26:46.754][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.754][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.754][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.755][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.755][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-03 18:26:46.755][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 18:26:46.755][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.756][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-03 18:26:46.756][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 18:26:46.756][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.757][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.757][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-03 18:26:46.757][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-03 18:26:46.757][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-03 18:26:46.757][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-03 18:26:46.757][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-03 18:26:46.757][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 18:26:46.757][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:46.758][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:46.758][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 18:26:46.758][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:46.759][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:46.759][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.759][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.760][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 18:26:46.760][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 18:26:46.760][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.760][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.761][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-03 18:26:46.761][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.761][self$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[2025-10-03 18:26:46.762][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.762][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 18:26:46.762][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.763][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.763][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.763][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.764][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-03 18:26:46.764][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 18:26:46.764][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.765][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-03 18:26:46.765][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 18:26:46.765][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.766][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.766][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.766][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 18:26:46.766][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:46.767][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:46.767][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 18:26:46.767][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:46.767][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:46.768][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.768][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.768][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 18:26:46.768][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 18:26:46.769][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.769][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.769][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-03 18:26:46.770][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.770][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-03 18:26:46.770][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.770][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 18:26:46.771][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.771][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.771][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.771][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.772][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-03 18:26:46.772][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 18:26:46.772][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.772][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-03 18:26:46.773][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 18:26:46.773][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.773][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.773][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.774][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 18:26:46.774][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:46.774][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:46.774][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 18:26:46.775][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:46.775][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:46.775][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.775][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.776][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 18:26:46.776][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 18:26:46.776][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.776][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.779][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-03 18:26:46.780][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.780][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.782][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.783][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.786][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.DEBUG[2025-10-03 18:26:46.786][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.788][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.790][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.791][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[2025-10-03 18:26:46.791][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.793][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.795][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.797][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.800][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-03 18:26:46.801][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-03 18:26:46.801][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-03 18:26:46.802][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-03 18:26:46.802][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-03 18:26:46.802][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-03 18:26:46.803][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-03 18:26:46.803][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-03 18:26:46.804][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-03 18:26:46.804][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-03 18:26:46.804][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-03 18:26:46.805][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-03 18:26:46.805][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-03 18:26:46.805][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-03 18:26:46.806][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-03 18:26:46.806][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-03 18:26:46.807][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-03 18:26:46.807][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-03 18:26:46.807][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-03 18:26:46.808][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-03 18:26:46.808][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-03 18:26:46.809][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-03 18:26:46.809][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-03 18:26:46.810][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-03 18:26:46.810][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-03 18:26:46.810][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-03 18:26:46.811][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-03 18:26:46.811][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-03 18:26:46.812][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-03 18:26:46.812][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-03 18:26:46.812][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-03 18:26:46.813][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-03 18:26:46.813][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-03 18:26:46.813][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-03 18:26:46.814][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-03 18:26:46.814][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-03 18:26:46.815][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-03 18:26:46.815][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-03 18:26:46.815][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-03 18:26:46.816][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-03 18:26:46.816][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-03 18:26:46.817][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-03 18:26:46.817][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-03 18:26:46.817][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-03 18:26:46.818][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-03 18:26:46.818][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-03 18:26:46.819][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-03 18:26:46.819][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-03 18:26:46.819][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-03 18:26:46.820][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-03 18:26:46.820][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-03 18:26:46.821][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-03 18:26:46.821][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-03 18:26:46.821][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-03 18:26:46.822][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-03 18:26:46.822][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-03 18:26:46.822][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-03 18:26:46.823][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-03 18:26:46.823][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-03 18:26:46.823][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-03 18:26:46.824][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-03 18:26:46.824][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-03 18:26:46.825][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-03 18:26:46.825][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-03 18:26:46.825][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-03 18:26:46.826][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-03 18:26:46.826][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-03 18:26:46.827][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-03 18:26:46.827][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-03 18:26:46.827][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-03 18:26:46.828][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-03 18:26:46.828][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-03 18:26:46.829][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-03 18:26:46.829][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-03 18:26:46.829][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-03 18:26:46.830][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-03 18:26:46.830][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-03 18:26:46.830][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-03 18:26:46.831][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-03 18:26:46.831][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-03 18:26:46.832][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-03 18:26:46.832][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-03 18:26:46.833][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-03 18:26:46.833][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-03 18:26:46.834][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-03 18:26:46.834][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-03 18:26:46.834][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.835][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.835][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.DEBUG[2025-10-03 18:26:46.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.836][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.841][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.841][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.842][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[2025-10-03 18:26:46.843][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.843][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.846][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.849][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[2025-10-03 18:26:46.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.851][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.852][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.853][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.853][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.854][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[2025-10-03 18:26:46.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.857][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[2025-10-03 18:26:46.858][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.860][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.863][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-03 18:26:46.864][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-03 18:26:46.864][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.865][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.867][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.868][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 18:26:46.868][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.868][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.869][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.869][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-03 18:26:46.869][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-03 18:26:46.869][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 18:26:46.870][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.870][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-03 18:26:46.870][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 18:26:46.870][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-03 18:26:46.870][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-03 18:26:46.870][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-03 18:26:46.870][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-03 18:26:46.870][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-03 18:26:46.870][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-03 18:26:46.870][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-03 18:26:46.870][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-03 18:26:46.870][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-03 18:26:46.870][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-03 18:26:46.870][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-03 18:26:46.871][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.871][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-03 18:26:46.871][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-03 18:26:46.871][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-03 18:26:46.871][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-03 18:26:46.871][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:46.872][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:46.872][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 18:26:46.872][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:46.872][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:46.873][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.873][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-03 18:26:46.873][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-03 18:26:46.873][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 18:26:46.873][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 18:26:46.874][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.874][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-03 18:26:46.874][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-03 18:26:46.874][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-03 18:26:46.875][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-03 18:26:46.875][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-03 18:26:46.876][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-03 18:26:46.876][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-03 18:26:46.876][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-03 18:26:46.877][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-03 18:26:46.879][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-03 18:26:46.880][biodb::testThat]
biodb.INFO [2025-10-03 18:26:46.880][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-10-03 18:26:46.880][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 18:26:46.880][biodb::testThat]
sched.DEBUG[2025-10-03 18:26:46.881][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-03 18:26:46.882][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:46.884][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-03 18:26:46.884][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-03 18:26:46.885][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-03 18:26:46.886][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:46.887][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-03 18:26:46.887][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-03 18:26:46.890][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-03 18:26:46.890][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-03 18:26:46.891][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-03 18:26:46.891][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:46.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:46.891][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.892][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-03 18:26:46.893][biodb::testContext]
biodb.INFO [2025-10-03 18:26:46.894][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-03 18:26:46.894][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-10-03 18:26:46.894][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-03 18:26:46.894][biodb::testContext]
biodb.INFO [2025-10-03 18:26:46.895][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-03 18:26:46.896][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-03 18:26:46.897][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-03 18:26:46.897][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-03 18:26:46.898][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-03 18:26:46.898][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.899][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-03 18:26:46.899][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-03 18:26:46.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.900][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-03 18:26:46.900][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-03 18:26:46.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.901][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-03 18:26:46.901][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-03 18:26:46.902][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-03 18:26:46.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.902][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-03 18:26:46.903][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-03 18:26:46.903][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-03 18:26:46.903][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.904][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-03 18:26:46.904][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-03 18:26:46.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.905][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-03 18:26:46.905][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-03 18:26:46.906][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-03 18:26:46.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.906][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.DEBUG[2025-10-03 18:26:46.907][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-03 18:26:46.907][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-03 18:26:46.907][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.908][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-03 18:26:46.908][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-03 18:26:46.908][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-03 18:26:46.909][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.909][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-03 18:26:46.910][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-03 18:26:46.910][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-03 18:26:46.910][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-03 18:26:46.910][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-03 18:26:46.911][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-03 18:26:46.911][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.911][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-03 18:26:46.912][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-03 18:26:46.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.913][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-03 18:26:46.913][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-03 18:26:46.913][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.914][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-03 18:26:46.914][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-03 18:26:46.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.915][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-03 18:26:46.915][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-03 18:26:46.916][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-03 18:26:46.916][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.916][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-03 18:26:46.917][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-03 18:26:46.922][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-03 18:26:46.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.923][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-03 18:26:46.923][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-03 18:26:46.924][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-03 18:26:46.924][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.925][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-03 18:26:46.925][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.926][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-03 18:26:46.926][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.926][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 18:26:46.926][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.927][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.927][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.927][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.927][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-03 18:26:46.928][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 18:26:46.928][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.928][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-03 18:26:46.929][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 18:26:46.929][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.929][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.929][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-03 18:26:46.929][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-03 18:26:46.929][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-03 18:26:46.929][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-03 18:26:46.929][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-03 18:26:46.930][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 18:26:46.930][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:46.930][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:46.930][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 18:26:46.931][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:46.931][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:46.931][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.931][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.932][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 18:26:46.932][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 18:26:46.932][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.932][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.933][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-03 18:26:46.933][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.934][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-03 18:26:46.934][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.934][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 18:26:46.934][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.935][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.935][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.935][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.935][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-03 18:26:46.936][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 18:26:46.936][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.936][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-03 18:26:46.936][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 18:26:46.937][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.937][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.937][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-03 18:26:46.937][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-03 18:26:46.937][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-03 18:26:46.937][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-03 18:26:46.937][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-03 18:26:46.937][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 18:26:46.938][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:46.938][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:46.938][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 18:26:46.938][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:46.939][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:46.939][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.939][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.940][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 18:26:46.940][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 18:26:46.940][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.940][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.941][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-03 18:26:46.941][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.941][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-03 18:26:46.942][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.942][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 18:26:46.942][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.943][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.943][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.943][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.943][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-03 18:26:46.944][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 18:26:46.944][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.944][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-03 18:26:46.944][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 18:26:46.945][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.945][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.945][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.945][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 18:26:46.946][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:46.946][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:46.946][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 18:26:46.947][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:46.947][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:46.947][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.947][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.948][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 18:26:46.948][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 18:26:46.948][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.948][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.949][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-03 18:26:46.949][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.949][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-03 18:26:46.950][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.950][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 18:26:46.950][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.950][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.951][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.951][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.951][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-03 18:26:46.952][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 18:26:46.952][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.952][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-03 18:26:46.953][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 18:26:46.953][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.953][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:46.954][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.954][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-03 18:26:46.954][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:46.954][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:46.955][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 18:26:46.955][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:46.955][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:46.955][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 18:26:46.956][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.956][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 18:26:46.956][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 18:26:46.956][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:46.957][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-03 18:26:46.957][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-03 18:26:46.957][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.958][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.959][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.961][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[2025-10-03 18:26:46.961][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.965][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.968][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.970][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.972][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.976][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[2025-10-03 18:26:46.976][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:46.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:46.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:46.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:46.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:46.978][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[2025-10-03 18:26:46.979][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-03 18:26:46.979][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-03 18:26:46.979][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-03 18:26:46.980][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-03 18:26:46.980][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-03 18:26:46.980][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-03 18:26:46.981][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-03 18:26:46.981][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-03 18:26:46.982][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-03 18:26:46.982][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-03 18:26:46.982][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-03 18:26:46.983][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-03 18:26:46.983][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-03 18:26:46.983][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-03 18:26:46.984][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-03 18:26:46.984][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-03 18:26:46.984][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-03 18:26:46.985][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-03 18:26:46.985][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-03 18:26:46.986][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-03 18:26:46.986][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-03 18:26:46.986][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-03 18:26:46.987][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-03 18:26:46.987][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-03 18:26:46.987][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-03 18:26:46.988][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-03 18:26:46.988][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-03 18:26:46.988][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-03 18:26:46.989][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-03 18:26:46.989][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-03 18:26:46.989][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-03 18:26:46.990][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-03 18:26:46.990][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-03 18:26:46.991][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-03 18:26:46.991][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-03 18:26:46.991][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-03 18:26:46.992][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-03 18:26:46.992][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-03 18:26:46.992][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-03 18:26:46.993][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-03 18:26:46.993][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-03 18:26:46.993][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-03 18:26:46.994][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-03 18:26:46.994][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-03 18:26:46.995][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-03 18:26:46.995][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-03 18:26:46.995][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-03 18:26:46.996][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-03 18:26:46.996][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-03 18:26:46.996][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-03 18:26:46.997][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-03 18:26:46.997][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-03 18:26:46.998][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-03 18:26:46.998][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-03 18:26:46.998][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-03 18:26:46.999][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-03 18:26:46.999][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-03 18:26:46.999][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-03 18:26:47.000][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-03 18:26:47.000][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-03 18:26:47.000][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-03 18:26:47.001][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-03 18:26:47.001][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-03 18:26:47.002][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-03 18:26:47.002][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-03 18:26:47.002][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-03 18:26:47.003][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-03 18:26:47.003][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-03 18:26:47.003][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-03 18:26:47.004][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-03 18:26:47.004][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-03 18:26:47.004][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-03 18:26:47.005][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-03 18:26:47.005][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-03 18:26:47.006][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-03 18:26:47.006][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-03 18:26:47.006][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-03 18:26:47.007][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-03 18:26:47.007][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-03 18:26:47.007][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-03 18:26:47.008][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-03 18:26:47.008][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-03 18:26:47.008][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-03 18:26:47.009][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-03 18:26:47.009][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-03 18:26:47.010][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-03 18:26:47.010][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:47.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:47.010][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:47.011][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[2025-10-03 18:26:47.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:47.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:47.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:47.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:47.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:47.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:47.012][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[2025-10-03 18:26:47.012][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:47.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:47.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:47.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:47.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:47.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:47.014][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[2025-10-03 18:26:47.014][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:47.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:47.014][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:47.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:47.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:47.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:47.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:47.016][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:47.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:47.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:47.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:47.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:47.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:47.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:47.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:47.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:47.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:47.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:47.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:47.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:47.018][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[2025-10-03 18:26:47.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:47.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:47.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:47.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:47.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:47.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:47.020][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[2025-10-03 18:26:47.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:47.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:47.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:47.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:47.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:47.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:47.022][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[2025-10-03 18:26:47.022][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:47.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:47.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:47.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:47.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:47.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:47.023][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[2025-10-03 18:26:47.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:47.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:47.024][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:47.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:47.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:47.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:47.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:47.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:47.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:47.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:47.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:47.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:47.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:47.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:47.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:47.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:47.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:47.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:47.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:47.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:47.028][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[2025-10-03 18:26:47.028][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:47.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:47.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:47.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:47.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:47.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:47.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:47.030][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:47.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:47.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:47.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:47.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:47.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:47.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:47.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:47.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:47.032][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:47.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:47.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:47.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:47.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:47.033][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:47.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:47.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:47.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:47.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:47.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:47.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:47.034][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-03 18:26:47.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:47.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:47.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:47.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:47.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:47.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-03 18:26:47.036][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-03 18:26:47.037][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-03 18:26:47.037][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:47.038][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-03 18:26:47.038][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:47.038][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-03 18:26:47.038][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:47.039][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-03 18:26:47.039][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:47.039][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-03 18:26:47.039][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-03 18:26:47.040][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-03 18:26:47.040][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:47.040][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-03 18:26:47.040][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-03 18:26:47.041][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-03 18:26:47.041][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-03 18:26:47.041][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-03 18:26:47.041][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-03 18:26:47.041][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-03 18:26:47.041][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-03 18:26:47.041][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-03 18:26:47.041][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-03 18:26:47.041][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-03 18:26:47.041][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-03 18:26:47.041][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-03 18:26:47.041][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-03 18:26:47.041][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-03 18:26:47.041][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-03 18:26:47.041][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-03 18:26:47.042][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-03 18:26:47.044][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:47.045][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:47.045][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-03 18:26:47.045][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-03 18:26:47.045][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-03 18:26:47.046][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-03 18:26:47.046][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-03 18:26:47.046][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-03 18:26:47.046][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-03 18:26:47.046][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-03 18:26:47.047][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-03 18:26:47.047][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-03 18:26:47.047][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-03 18:26:47.047][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-03 18:26:47.048][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-03 18:26:47.048][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-03 18:26:47.049][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-03 18:26:47.049][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-03 18:26:47.049][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-03 18:26:47.050][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-03 18:26:47.052][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-03 18:26:47.052][biodb::testThat]
biodb.INFO [2025-10-03 18:26:47.053][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-10-03 18:26:47.053][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-03 18:26:47.053][biodb::testThat]
sched.DEBUG[2025-10-03 18:26:47.054][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-03 18:26:47.055][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:47.057][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-03 18:26:47.057][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-03 18:26:47.058][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 [2025-10-03 18:26:47.059][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-03 18:26:47.060][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-03 18:26:47.060][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-03 18:26:47.061][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-10-03 18:26:47.063][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-03 18:26:47.063][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-03 18:26:47.066][FUN] Found encoding UTF-8 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-10-03 18:26:47.067][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-03 18:26:47.067][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-03 18:26:47.068][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-03 18:26:47.068][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-03 18:26:47.069][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:47.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:47.071][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:47.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:47.071][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:47.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-03 18:26:47.073][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:47.073][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:47.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.073][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:47.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:47.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.075][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:47.075][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:47.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.076][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.076][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-03 18:26:47.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-03 18:26:47.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.077][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:47.078][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:47.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.078][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.079][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-03 18:26:47.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-03 18:26:47.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.080][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-03 18:26:47.080][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-03 18:26:47.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.080][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.081][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-03 18:26:47.081][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-03 18:26:47.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.082][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.082][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:47.082][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:47.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.083][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.083][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:47.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-03 18:26:47.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.084][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:47.084][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:47.085][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.085][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.085][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-03 18:26:47.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-03 18:26:47.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.086][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:47.087][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:47.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.087][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.088][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:47.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-03 18:26:47.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.089][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:47.090][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:47.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.090][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.091][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-03 18:26:47.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-03 18:26:47.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.092][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:47.092][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:47.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.093][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.093][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-03 18:26:47.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-03 18:26:47.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.094][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:47.095][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:47.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.095][ef$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.095][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-03 18:26:47.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-03 18:26:47.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.097][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:47.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:47.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.098][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:47.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:47.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:47.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:47.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-03 18:26:47.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-03 18:26:47.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:47.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:47.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:47.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:47.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:47.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:47.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:47.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:47.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:47.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:47.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-03 18:26:47.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-03 18:26:47.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-03 18:26:47.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-03 18:26:47.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-03 18:26:47.107][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-10-03 18:26:47.109][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-03 18:26:47.109][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-03 18:26:47.109][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-03 18:26:47.110][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-03 18:26:47.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-03 18:26:47.110][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-03 18:26:47.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-03 18:26:47.111][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-03 18:26:47.111][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 357 ]
> 
> proc.time()
   user  system elapsed 
  4.673   0.263   7.052

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn0.7150.2050.930
ChebiEntry0.0860.0060.092