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This page was generated on 2025-08-16 12:04 -0400 (Sat, 16 Aug 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4818
lconwaymacOS 12.7.1 Montereyx86_644.5.1 (2025-06-13) -- "Great Square Root" 4596
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4538
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4535
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 205/2317HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.15.1  (landing page)
Pierrick Roger
Snapshot Date: 2025-08-15 13:45 -0400 (Fri, 15 Aug 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 lconway

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

raw results


Summary

Package: biodbChebi
Version: 1.15.1
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.15.1.tar.gz
StartedAt: 2025-08-15 19:27:26 -0400 (Fri, 15 Aug 2025)
EndedAt: 2025-08-15 19:28:59 -0400 (Fri, 15 Aug 2025)
EllapsedTime: 92.4 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.15.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/biodbChebi.Rcheck’
* using R version 4.5.1 (2025-06-13)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Monterey 12.7.6
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.15.1’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK

Installation output

biodbChebi.Rcheck/00install.out

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library’
* installing *source* package ‘biodbChebi’ ...
** this is package ‘biodbChebi’ version ‘1.15.1’
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbChebi)

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


R version 4.5.1 (2025-06-13) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-08-15 19:28:23.504][biodb::testContext]
biodb.INFO [2025-08-15 19:28:23.509][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-15 19:28:23.511][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-08-15 19:28:23.512][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-15 19:28:23.514][biodb::testContext]
biodb.INFO [2025-08-15 19:28:23.523][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-15 19:28:23.526][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-08-15 19:28:23.535][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-15 19:28:23.537][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-15 19:28:23.539][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-15 19:28:23.540][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:23.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:23.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:23.544][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-15 19:28:23.571][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-15 19:28:23.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:23.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:23.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:23.576][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-15 19:28:23.578][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-15 19:28:23.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:23.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:23.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:23.583][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-15 19:28:23.584][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-15 19:28:23.586][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-15 19:28:23.587][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:23.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:23.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:23.591][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-15 19:28:23.592][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-15 19:28:23.594][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-15 19:28:23.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:23.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:23.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:23.599][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-15 19:28:23.600][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-15 19:28:23.601][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:23.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:23.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:23.605][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-15 19:28:23.606][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-15 19:28:23.608][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-15 19:28:23.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:23.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:23.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:23.613][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-15 19:28:23.615][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-15 19:28:23.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:23.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:23.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:23.620][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-15 19:28:23.621][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-15 19:28:23.622][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-15 19:28:23.624][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:23.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:23.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:23.627][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-15 19:28:23.629][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-15 19:28:23.630][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-15 19:28:23.631][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-15 19:28:23.633][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-15 19:28:23.634][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-15 19:28:23.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:23.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:23.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:23.639][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-15 19:28:23.641][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-15 19:28:23.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:23.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:23.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:23.646][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-15 19:28:23.647][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-15 19:28:23.648][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:23.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:23.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:23.652][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-15 19:28:23.654][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-15 19:28:23.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:23.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:23.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:23.658][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-15 19:28:23.660][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-15 19:28:23.661][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-15 19:28:23.662][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:23.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:23.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:23.666][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-15 19:28:23.667][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-15 19:28:23.698][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-15 19:28:23.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:23.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:23.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:23.704][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-15 19:28:23.706][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-15 19:28:23.707][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-15 19:28:23.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:23.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:23.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:23.716][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-15 19:28:23.765][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:23.787][self$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[2025-08-15 19:28:23.788][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:23.790][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-15 19:28:23.792][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:23.794][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-15 19:28:23.796][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:23.797][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-15 19:28:23.798][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-15 19:28:23.800][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-15 19:28:23.801][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:23.803][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-15 19:28:23.804][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-15 19:28:23.806][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:23.807][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:23.808][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-15 19:28:23.808][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-15 19:28:23.808][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-15 19:28:23.808][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-15 19:28:23.808][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-15 19:28:23.810][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-15 19:28:23.811][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:23.812][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:23.814][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-15 19:28:23.815][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:23.816][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:23.817][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-15 19:28:23.818][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:23.820][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-15 19:28:23.821][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-15 19:28:23.822][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:23.824][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:23.825][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-15 19:28:23.828][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:23.829][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-15 19:28:23.830][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:23.831][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-15 19:28:23.832][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:23.833][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-15 19:28:23.835][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:23.836][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-15 19:28:23.837][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-15 19:28:23.839][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-15 19:28:23.840][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:23.841][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-15 19:28:23.842][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-15 19:28:23.843][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:23.844][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:23.845][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-15 19:28:23.845][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-15 19:28:23.845][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-15 19:28:23.845][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-15 19:28:23.845][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-15 19:28:23.847][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-15 19:28:23.848][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:23.849][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:23.851][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-15 19:28:23.852][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:23.853][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:23.855][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-15 19:28:23.856][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:23.857][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-15 19:28:23.858][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-15 19:28:23.859][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:23.861][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:23.862][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-15 19:28:23.865][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:23.866][self$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[2025-08-15 19:28:23.868][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:23.869][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-15 19:28:23.870][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:23.872][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-15 19:28:23.873][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:23.874][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-15 19:28:23.876][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-15 19:28:23.877][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-15 19:28:23.879][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:23.880][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-15 19:28:23.881][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-15 19:28:23.882][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:23.884][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:23.885][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:23.886][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-15 19:28:23.887][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:23.889][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:23.890][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-15 19:28:23.891][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:23.893][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:23.894][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-15 19:28:23.895][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:23.896][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-15 19:28:23.898][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-15 19:28:23.899][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:23.900][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:23.902][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-15 19:28:23.904][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:23.906][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-15 19:28:23.907][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:23.908][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-15 19:28:23.909][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:23.910][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-15 19:28:23.911][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:23.912][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-15 19:28:23.913][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-15 19:28:23.915][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-15 19:28:23.916][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:23.918][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-15 19:28:23.919][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-15 19:28:23.920][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:23.921][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:23.923][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:23.924][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-15 19:28:23.925][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:23.927][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:23.928][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-15 19:28:23.929][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:23.930][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:23.932][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-15 19:28:23.933][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:23.934][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-15 19:28:23.935][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-15 19:28:23.937][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:23.939][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:23.946][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-15 19:28:23.947][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:23.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:23.950][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:23.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:23.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:23.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:23.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:23.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:23.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:23.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:23.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:23.960][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[2025-08-15 19:28:23.962][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:23.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:23.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:23.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:23.966][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[2025-08-15 19:28:23.968][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:23.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:23.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:23.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:23.972][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[2025-08-15 19:28:23.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:23.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:23.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:23.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:23.978][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[2025-08-15 19:28:23.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:23.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:23.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:23.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:23.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:23.994][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:23.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:23.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:23.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:23.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:24.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:24.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:24.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:24.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:24.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:24.007][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:24.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:24.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:24.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:24.011][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[2025-08-15 19:28:24.012][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:24.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:24.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:24.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:24.017][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[2025-08-15 19:28:24.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:24.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:24.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:24.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:24.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:24.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:24.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:24.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:24.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:24.030][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.DEBUG[2025-08-15 19:28:24.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:24.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:24.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:24.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:24.036][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[2025-08-15 19:28:24.037][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:24.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:24.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:24.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:24.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:24.043][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:24.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:24.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:24.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:24.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:24.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:24.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:24.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:24.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:24.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:24.056][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-15 19:28:24.062][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-15 19:28:24.064][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-15 19:28:24.067][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-15 19:28:24.069][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-15 19:28:24.071][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-15 19:28:24.073][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-15 19:28:24.075][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-15 19:28:24.077][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-15 19:28:24.079][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-15 19:28:24.081][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-15 19:28:24.083][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-15 19:28:24.085][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-15 19:28:24.086][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-15 19:28:24.088][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-15 19:28:24.090][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-15 19:28:24.092][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-15 19:28:24.094][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-15 19:28:24.096][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-15 19:28:24.097][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-15 19:28:24.099][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-15 19:28:24.101][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-15 19:28:24.103][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-15 19:28:24.105][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-15 19:28:24.107][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-15 19:28:24.109][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-15 19:28:24.111][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-15 19:28:24.113][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-15 19:28:24.115][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-15 19:28:24.116][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-15 19:28:24.118][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-15 19:28:24.120][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-15 19:28:24.122][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-15 19:28:24.124][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-15 19:28:24.126][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-15 19:28:24.128][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-15 19:28:24.130][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-15 19:28:24.132][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-15 19:28:24.135][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-15 19:28:24.136][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-15 19:28:24.138][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-15 19:28:24.140][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-15 19:28:24.142][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-15 19:28:24.144][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-15 19:28:24.145][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-15 19:28:24.147][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-15 19:28:24.149][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-15 19:28:24.151][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-15 19:28:24.153][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-15 19:28:24.155][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-15 19:28:24.157][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-15 19:28:24.159][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-15 19:28:24.161][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-15 19:28:24.163][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-15 19:28:24.165][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-15 19:28:24.167][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-15 19:28:24.168][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-15 19:28:24.170][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-15 19:28:24.172][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-15 19:28:24.174][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-15 19:28:24.176][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-15 19:28:24.178][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-15 19:28:24.179][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-15 19:28:24.181][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-15 19:28:24.183][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-15 19:28:24.185][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-15 19:28:24.187][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-15 19:28:24.188][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-15 19:28:24.190][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-15 19:28:24.192][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-15 19:28:24.194][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-15 19:28:24.196][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-15 19:28:24.198][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-15 19:28:24.199][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-15 19:28:24.201][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-15 19:28:24.203][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-15 19:28:24.205][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-15 19:28:24.208][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-15 19:28:24.210][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-15 19:28:24.212][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-15 19:28:24.214][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-15 19:28:24.216][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-15 19:28:24.218][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-15 19:28:24.226][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-15 19:28:24.229][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-08-15 19:28:24.233][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-15 19:28:24.235][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:24.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:24.238][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:24.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:24.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:24.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:24.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:24.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:24.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:24.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:24.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:24.264][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:24.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:24.266][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:24.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:24.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:24.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:24.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:24.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:24.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:24.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:24.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:24.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:24.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:24.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:24.279][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:24.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:24.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:24.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:24.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:24.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:24.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:24.287][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:24.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:24.290][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:24.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:24.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:24.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:24.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:24.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:24.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:24.298][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:24.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:24.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:24.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:24.302][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.DEBUG[2025-08-15 19:28:24.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:24.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:24.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:24.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:24.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:24.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:24.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:24.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:24.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:24.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:24.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:24.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:24.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:24.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:24.319][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:24.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:24.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:24.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:24.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:24.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:24.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:24.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:24.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:24.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:24.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:24.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:24.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:24.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:24.335][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:24.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:24.337][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:24.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:24.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:24.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:24.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:24.342][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:24.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:24.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:24.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:24.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:24.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:24.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:24.351][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:24.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:24.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:24.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:24.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:24.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:24.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:24.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:24.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:24.361][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:24.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:24.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:24.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:24.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:24.367][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:24.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:24.370][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:24.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:24.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:24.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:24.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:24.376][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:24.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:24.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:24.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:24.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:24.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:24.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:24.387][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-08-15 19:28:24.401][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-08-15 19:28:24.403][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:24.405][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-15 19:28:24.406][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:24.408][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-15 19:28:24.409][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:24.411][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-15 19:28:24.412][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:24.413][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-15 19:28:24.415][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-15 19:28:24.416][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-15 19:28:24.418][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:24.419][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-08-15 19:28:24.420][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-15 19:28:24.422][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-15 19:28:24.422][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-08-15 19:28:24.422][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-15 19:28:24.422][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-15 19:28:24.422][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-15 19:28:24.422][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-08-15 19:28:24.422][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-15 19:28:24.422][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-15 19:28:24.422][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-08-15 19:28:24.422][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-15 19:28:24.422][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-15 19:28:24.424][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:24.425][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-15 19:28:24.425][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-15 19:28:24.425][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-15 19:28:24.427][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-15 19:28:24.428][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:24.429][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:24.431][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-15 19:28:24.432][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:24.433][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:24.435][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-15 19:28:24.436][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-15 19:28:24.436][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-15 19:28:24.437][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-15 19:28:24.439][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-15 19:28:24.440][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:24.441][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-15 19:28:24.441][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-15 19:28:24.450][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-15 19:28:24.453][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-15 19:28:24.456][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-08-15 19:28:24.458][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-15 19:28:24.461][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-15 19:28:24.463][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-15 19:28:24.498][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-08-15 19:28:24.532][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-08-15 19:28:24.545][biodb::testThat]
biodb.INFO [2025-08-15 19:28:24.547][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-08-15 19:28:24.548][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-15 19:28:24.550][biodb::testThat]
biodb.TRACE[2025-08-15 19:28:24.556][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-08-15 19:28:24.559][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-15 19:28:24.563][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-15 19:28:24.575][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:24.576][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:24.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:24.597][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:24.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:24.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:24.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:24.611][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:24.613][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:24.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.616][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:24.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:24.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.642][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:24.644][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:24.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.646][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.687][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:24.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:24.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.695][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:24.697][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:24.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.700][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.703][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:24.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:24.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.709][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:24.711][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:24.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.714][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.715][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:24.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:24.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.721][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:24.723][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:24.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.725][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.727][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:24.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:24.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.732][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:24.734][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:24.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.736][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.738][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:24.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:24.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.744][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:24.745][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:24.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.747][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.749][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:24.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:24.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.755][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:24.757][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:24.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.759][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.761][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:24.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:24.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.767][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:24.768][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:24.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.771][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.773][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:24.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:24.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.792][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:24.793][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:24.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.796][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.797][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:24.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:24.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.803][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:24.804][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:24.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.807][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.808][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:24.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:24.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:24.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:24.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:24.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:24.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:24.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:24.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:24.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:24.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:24.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:24.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:24.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:24.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:24.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:24.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:24.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:24.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.904][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:24.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:24.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.909][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:24.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:24.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:24.915][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-08-15 19:28:24.918][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:24.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:24.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.925][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:24.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:24.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.963][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:24.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:24.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.977][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:24.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:24.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.982][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:24.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:24.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:24.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:24.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.993][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-15 19:28:24.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-15 19:28:24.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:24.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:24.999][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-15 19:28:25.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-15 19:28:25.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.006][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-15 19:28:25.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-15 19:28:25.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.012][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-15 19:28:25.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-15 19:28:25.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:25.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:25.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.044][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:25.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:25.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:25.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:25.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:25.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:25.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:25.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:25.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:25.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:25.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:25.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:25.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:25.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:25.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.093][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:25.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:25.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.098][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:25.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:25.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.104][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:25.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:25.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:25.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:25.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:25.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:25.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:25.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:25.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.137][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:25.138][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:25.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.140][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:25.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:25.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.159][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:25.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:25.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.177][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:25.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:25.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.182][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:25.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:25.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.189][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:25.191][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:25.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.193][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:25.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:25.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.218][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:25.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:25.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.224][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:25.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:25.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.229][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:25.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:25.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.234][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:25.236][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:25.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.238][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.240][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:25.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:25.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.256][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:25.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:25.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.261][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:25.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:25.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.265][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:25.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:25.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.270][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:25.272][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:25.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.274][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.275][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:25.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:25.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.292][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:25.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:25.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.299][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:25.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:25.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.304][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:25.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:25.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.309][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:25.310][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:25.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.312][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.314][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:25.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:25.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.330][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:25.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:25.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:25.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:25.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:25.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:25.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.346][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:25.348][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:25.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.350][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.351][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:25.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:25.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.368][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:25.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:25.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.373][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:25.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:25.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.378][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:25.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:25.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.383][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:25.385][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:25.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.387][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.388][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:25.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:25.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.405][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-15 19:28:25.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:25.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.453][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-15 19:28:25.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:25.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.459][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-15 19:28:25.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:25.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.464][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-15 19:28:25.466][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:25.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.468][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.469][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-15 19:28:25.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:25.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.487][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:25.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:25.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.493][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:25.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:25.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.498][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:25.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:25.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.503][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:25.505][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:25.506][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.507][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.509][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:25.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:25.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.525][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:25.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:25.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.531][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:25.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:25.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.535][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:25.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:25.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.540][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:25.541][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:25.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.543][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.545][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:25.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:25.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.560][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:25.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:25.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.567][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:25.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:25.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.572][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:25.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:25.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.578][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:25.579][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:25.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.582][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.583][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:25.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:25.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.600][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:25.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:25.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.607][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:25.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:25.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.612][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:25.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:25.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.617][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:25.619][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:25.620][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.621][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.623][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:25.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:25.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.639][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:25.641][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:25.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.644][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.651][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:25.653][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:25.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.655][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.670][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:25.671][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:25.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.673][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.680][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:25.682][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:25.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.685][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.692][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:25.694][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:25.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.696][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.704][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:25.706][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:25.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.708][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.716][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:25.717][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:25.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.720][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.727][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:25.729][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:25.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.732][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.738][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-15 19:28:25.740][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:25.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.742][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.749][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:25.751][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:25.752][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.754][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.761][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:25.762][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:25.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.764][ef$get] fields variable is a list.
biodb.INFO [2025-08-15 19:28:25.776][biodb::testThat]
biodb.INFO [2025-08-15 19:28:25.777][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-08-15 19:28:25.778][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-15 19:28:25.780][biodb::testThat]
biodb.DEBUG[2025-08-15 19:28:25.797][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-08-15 19:28:25.804][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-15 19:28:25.809][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-15 19:28:25.815][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-08-15 19:28:25.817][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-15 19:28:25.847][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-15 19:28:25.849][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-15 19:28:25.851][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:25.852][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:25.853][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:25.861][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:25.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:25.863][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:25.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:25.867][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:25.868][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:25.870][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.871][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:25.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:25.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.905][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:25.906][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:25.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.909][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.911][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:25.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:25.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.917][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:25.918][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:25.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.920][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.922][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:25.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:25.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.926][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:25.927][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:25.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.930][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.931][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:25.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:25.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.937][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:25.938][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:25.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.941][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.942][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:25.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:25.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.948][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:25.949][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:25.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.951][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.953][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:25.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:25.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.959][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:25.960][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:25.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.963][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.965][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:25.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:25.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.970][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:25.972][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:25.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.974][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.976][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:25.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:25.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.981][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:25.982][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:25.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.984][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.986][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:25.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:25.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.991][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:25.992][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:25.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.994][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:25.996][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:25.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:25.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:25.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.001][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:26.002][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:26.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.005][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.006][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:26.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:26.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:26.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:26.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:26.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:26.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:26.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:26.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.026][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:26.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:26.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:26.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:26.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:26.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:26.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:26.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:26.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:26.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:26.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:26.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:26.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:26.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:26.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:26.064][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-08-15 19:28:26.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-08-15 19:28:26.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-08-15 19:28:26.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.070][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-08-15 19:28:26.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-08-15 19:28:26.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-08-15 19:28:26.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-08-15 19:28:26.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-15 19:28:26.091][biodb::testThat]
biodb.INFO [2025-08-15 19:28:26.093][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-08-15 19:28:26.094][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-15 19:28:26.096][biodb::testThat]
biodb.TRACE[2025-08-15 19:28:26.099][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:26.101][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:26.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.104][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:26.105][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-08-15 19:28:26.142][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:26.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:26.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.147][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:26.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:26.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.152][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:26.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:26.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:26.161][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-08-15 19:28:26.167][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-08-15 19:28:26.192][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:26.197][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-08-15 19:28:26.199][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-15 19:28:26.227][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 [2025-08-15 19:28:26.273][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:26.277][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-15 19:28:26.279][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-15 19:28:26.381][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-08-15 19:28:26.402][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:26.403][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:26.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.407][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.408][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:26.410][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:26.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.412][ef$get] fields variable is a list.
biodb.INFO [2025-08-15 19:28:26.418][biodb::testThat]
biodb.INFO [2025-08-15 19:28:26.420][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-08-15 19:28:26.421][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-15 19:28:26.422][biodb::testThat]
biodb.TRACE[2025-08-15 19:28:26.456][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:26.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:26.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.461][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:26.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:26.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.465][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:26.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:26.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-15 19:28:26.543][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 [2025-08-15 19:28:26.547][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:26.551][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-15 19:28:26.564][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-08-15 19:28:26.592][biodb::testThat]
biodb.INFO [2025-08-15 19:28:26.593][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-08-15 19:28:26.595][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-15 19:28:26.596][biodb::testThat]
biodb.TRACE[2025-08-15 19:28:26.622][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:26.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:26.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.629][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:26.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:26.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.634][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:26.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:26.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.638][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:26.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:26.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.644][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:26.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:26.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.649][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:26.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:26.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.654][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-15 19:28:26.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-15 19:28:26.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.660][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-15 19:28:26.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-15 19:28:26.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.665][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-15 19:28:26.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-15 19:28:26.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.670][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-15 19:28:26.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-15 19:28:26.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.698][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:26.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:26.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.724][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:26.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:26.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.733][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:26.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:26.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.737][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:26.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:26.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.742][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:26.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:26.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.747][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:26.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:26.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.759][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-15 19:28:26.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-15 19:28:26.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.764][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-15 19:28:26.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-15 19:28:26.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.768][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-15 19:28:26.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-15 19:28:26.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:26.773][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-15 19:28:26.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-15 19:28:26.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:26.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-15 19:28:26.786][biodb::testThat]
biodb.INFO [2025-08-15 19:28:26.788][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-08-15 19:28:26.789][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-15 19:28:26.791][biodb::testThat]
biodb.INFO [2025-08-15 19:28:26.802][biodb::testThat]
biodb.INFO [2025-08-15 19:28:26.804][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-08-15 19:28:26.805][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-15 19:28:26.806][biodb::testThat]
biodb.INFO [2025-08-15 19:28:26.817][biodb::testThat]
biodb.INFO [2025-08-15 19:28:26.819][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-08-15 19:28:26.820][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-15 19:28:26.821][biodb::testThat]
biodb.DEBUG[2025-08-15 19:28:26.826][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-08-15 19:28:33.736][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-08-15 19:28:34.780][biodb::testThat]
biodb.INFO [2025-08-15 19:28:34.782][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-08-15 19:28:34.784][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-15 19:28:34.785][biodb::testThat]
biodb.TRACE[2025-08-15 19:28:34.794][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:34.796][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:34.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:34.798][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:34.800][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:34.801][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:34.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:34.804][ef$get] fields variable is a list.
biodb.INFO [2025-08-15 19:28:34.806][biodb::testThat]
biodb.INFO [2025-08-15 19:28:34.807][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-08-15 19:28:34.809][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-15 19:28:34.810][biodb::testThat]
biodb.TRACE[2025-08-15 19:28:34.827][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:34.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:34.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:34.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:34.834][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:34.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:34.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:34.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:34.840][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:34.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:34.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:34.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-15 19:28:34.983][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 [2025-08-15 19:28:34.987][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:34.991][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-15 19:28:34.992][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-15 19:28:35.107][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 [2025-08-15 19:28:35.111][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:35.115][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-15 19:28:35.117][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-08-15 19:28:35.137][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-15 19:28:35.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-15 19:28:35.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.148][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.155][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.160][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.166][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.171][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-15 19:28:35.184][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 [2025-08-15 19:28:35.187][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:35.190][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-08-15 19:28:35.192][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-15 19:28:35.196][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:35.197][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:35.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:35.207][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:35.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:35.210][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:35.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:35.213][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-08-15 19:28:35.282][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-15 19:28:35.284][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-15 19:28:35.289][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-08-15 19:28:35.291][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-15 19:28:35.293][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-15 19:28:35.294][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-15 19:28:35.296][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:35.297][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:35.298][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:35.305][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:35.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:35.307][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:35.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:35.310][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:35.312][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:35.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.314][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:35.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:35.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.320][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:35.322][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:35.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.324][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.326][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:35.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:35.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.332][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:35.333][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:35.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.336][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.338][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:35.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:35.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.344][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:35.345][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:35.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.348][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.350][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:35.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:35.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.356][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:35.357][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:35.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.360][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.361][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:35.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:35.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.367][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:35.369][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:35.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.372][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.374][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:35.375][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.378][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.380][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:35.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.385][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:35.386][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:35.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.388][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:35.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:35.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.395][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:35.396][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:35.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.399][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.401][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:35.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:35.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.406][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:35.415][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:35.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.418][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.420][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:35.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:35.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.425][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:35.426][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:35.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.428][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.429][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:35.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:35.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.435][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:35.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:35.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.441][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:35.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:35.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.445][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:35.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:35.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.449][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:35.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:35.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:35.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:35.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:35.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:35.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:35.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:35.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:35.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:35.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:35.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:35.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:35.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:35.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:35.483][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-08-15 19:28:35.495][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.501][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.506][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-15 19:28:35.512][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-15 19:28:35.515][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:35.518][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-08-15 19:28:35.519][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-15 19:28:35.539][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:35.540][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:35.542][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:35.549][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:35.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:35.551][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:35.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:35.553][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.571][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.575][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:35.589][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:35.590][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:35.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:35.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:35.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:35.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:35.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:35.603][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-08-15 19:28:35.605][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-15 19:28:35.606][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-15 19:28:35.610][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-08-15 19:28:35.612][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-15 19:28:35.613][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-15 19:28:35.615][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-15 19:28:35.616][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:35.617][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:35.619][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:35.626][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:35.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:35.628][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:35.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:35.632][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:35.633][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:35.635][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.636][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:35.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:35.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.643][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:35.644][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:35.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.647][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.648][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:35.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:35.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.654][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:35.655][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:35.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.658][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.660][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:35.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:35.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.666][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:35.668][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:35.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.670][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.672][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:35.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:35.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.677][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:35.678][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:35.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.680][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.681][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:35.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:35.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.685][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:35.686][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:35.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.688][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.690][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:35.691][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.693][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.695][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:35.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.700][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:35.701][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:35.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.703][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:35.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:35.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.708][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:35.709][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:35.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.711][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.714][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:35.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:35.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.718][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:35.719][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:35.720][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.721][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.723][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:35.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:35.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.727][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:35.729][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:35.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.731][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.732][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:35.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:35.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:35.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:35.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.742][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:35.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:35.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:35.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:35.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.761][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:35.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:35.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:35.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:35.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:35.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:35.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:35.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:35.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:35.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:35.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:35.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:35.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:35.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:35.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:35.794][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-08-15 19:28:35.795][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.801][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.806][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-15 19:28:35.839][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 [2025-08-15 19:28:35.844][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:35.849][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-15 19:28:35.850][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-15 19:28:35.854][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:35.855][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:35.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:35.863][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:35.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:35.865][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:35.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:35.868][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.873][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.878][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:35.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:35.883][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:35.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:35.891][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:35.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:35.894][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:35.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:35.896][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-08-15 19:28:35.897][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-15 19:28:35.899][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-15 19:28:35.902][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-08-15 19:28:35.903][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-15 19:28:35.904][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-15 19:28:35.906][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-15 19:28:35.907][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:35.908][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:35.910][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:35.916][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:35.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:35.919][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:35.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:35.930][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:35.931][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:35.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.933][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.934][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:35.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:35.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.938][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:35.939][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:35.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.940][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.942][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:35.943][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:35.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.945][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.947][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:35.948][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:35.949][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.950][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.952][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:35.953][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:35.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.955][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.956][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:35.958][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:35.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.960][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.962][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:35.963][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:35.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.966][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.968][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:35.969][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:35.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.971][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.973][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:35.974][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:35.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.976][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.977][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:35.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:35.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.982][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:35.983][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:35.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.985][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.987][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:35.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:35.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.992][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:35.993][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:35.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:35.996][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:35.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:35.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:35.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.001][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:36.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:36.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:36.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:36.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:36.047][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-08-15 19:28:36.049][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.059][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.064][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.069][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:36.075][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:36.077][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:36.078][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:36.092][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:36.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:36.095][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:36.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:36.098][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-08-15 19:28:36.099][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-15 19:28:36.102][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-15 19:28:36.106][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-08-15 19:28:36.107][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-15 19:28:36.109][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-15 19:28:36.111][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-15 19:28:36.114][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:36.115][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:36.116][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:36.124][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:36.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:36.126][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:36.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:36.131][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.132][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.135][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.142][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:36.143][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:36.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.145][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.147][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:36.149][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:36.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.151][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.153][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:36.155][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:36.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.157][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.159][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:36.160][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:36.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.163][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.164][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:36.166][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:36.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.168][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.170][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:36.171][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.173][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.175][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:36.176][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:36.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.178][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.180][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:36.181][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:36.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.183][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.185][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:36.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:36.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.190][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:36.191][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:36.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.193][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.195][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:36.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:36.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.200][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:36.201][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:36.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.203][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:36.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:36.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.209][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:36.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:36.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.220][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:36.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:36.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.239][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:36.259][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-08-15 19:28:36.261][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.266][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.272][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.277][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.281][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:36.286][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:36.287][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:36.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:36.295][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:36.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:36.298][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:36.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:36.301][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-08-15 19:28:36.302][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-15 19:28:36.305][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-15 19:28:36.309][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-08-15 19:28:36.310][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-15 19:28:36.312][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-15 19:28:36.313][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-15 19:28:36.315][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:36.316][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:36.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:36.324][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:36.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:36.326][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:36.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:36.331][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.332][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.335][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.342][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:36.343][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:36.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.346][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.348][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:36.349][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:36.350][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.351][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.353][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:36.354][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:36.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.356][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.358][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:36.359][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:36.361][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.362][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.364][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:36.365][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:36.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.367][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.368][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:36.370][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.372][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.374][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:36.375][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:36.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.378][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.379][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:36.380][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:36.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.383][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.385][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:36.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:36.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.390][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:36.392][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:36.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.394][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.396][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:36.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:36.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.400][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:36.401][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:36.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.404][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.406][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:36.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:36.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.411][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:36.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:36.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.430][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:36.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:36.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.441][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:36.467][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-08-15 19:28:36.468][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.473][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.478][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.484][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.490][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:36.496][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:36.497][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:36.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:36.506][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:36.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:36.509][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:36.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:36.512][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-08-15 19:28:36.513][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-15 19:28:36.515][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-15 19:28:36.541][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-08-15 19:28:36.543][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-15 19:28:36.545][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-15 19:28:36.547][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-15 19:28:36.549][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:36.550][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:36.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:36.559][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:36.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:36.562][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:36.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:36.566][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.568][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.571][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.578][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:36.579][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:36.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.582][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.583][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:36.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:36.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.589][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:36.590][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:36.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.593][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.595][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:36.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:36.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.601][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:36.602][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:36.604][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.605][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.606][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:36.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:36.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.611][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:36.612][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:36.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.615][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.616][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:36.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:36.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.622][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:36.623][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:36.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.634][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.636][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:36.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:36.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.642][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:36.644][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.646][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.648][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:36.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.654][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:36.655][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:36.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.658][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:36.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:36.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.665][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:36.666][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:36.667][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.668][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.670][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:36.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:36.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.675][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:36.676][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:36.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.678][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.680][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:36.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:36.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.684][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:36.685][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:36.686][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.687][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.689][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:36.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:36.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.694][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:36.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:36.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:36.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:36.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:36.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:36.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:36.747][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-08-15 19:28:36.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.754][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.759][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:36.764][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:36.765][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:36.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:36.774][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:36.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:36.780][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:36.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:36.783][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-08-15 19:28:36.785][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-15 19:28:36.787][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-15 19:28:36.793][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-08-15 19:28:36.794][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-15 19:28:36.796][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-15 19:28:36.798][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-15 19:28:36.800][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:36.801][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:36.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:36.816][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:36.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:36.819][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:36.820][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[2025-08-15 19:28:36.823][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.824][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.827][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.828][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.832][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:36.834][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:36.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.836][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.838][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:36.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:36.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.843][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:36.844][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:36.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.847][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.849][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:36.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:36.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.854][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:36.855][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:36.856][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.857][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.858][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:36.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:36.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.863][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:36.864][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:36.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.867][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.868][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:36.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:36.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.873][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:36.875][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:36.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.877][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.879][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:36.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:36.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.884][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:36.885][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.887][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.889][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:36.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:36.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.894][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:36.895][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:36.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.897][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.899][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:36.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:36.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.904][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:36.906][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:36.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.908][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.910][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:36.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:36.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.916][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:36.917][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:36.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.920][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.922][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:36.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:36.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.927][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:36.928][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:36.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.930][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.932][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:36.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:36.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.936][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:36.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:36.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:36.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:36.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.952][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:36.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:36.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:36.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:36.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:36.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:36.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:36.999][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-08-15 19:28:37.001][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.006][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.010][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:37.016][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:37.016][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:37.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:37.025][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:37.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:37.028][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:37.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:37.031][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-08-15 19:28:37.032][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-15 19:28:37.034][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-15 19:28:37.038][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-08-15 19:28:37.040][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-15 19:28:37.042][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-15 19:28:37.043][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-15 19:28:37.046][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:37.047][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:37.049][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:37.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:37.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:37.060][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:37.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:37.065][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.067][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.070][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.078][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:37.079][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:37.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.081][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.083][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:37.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:37.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.088][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:37.089][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:37.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.091][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.093][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:37.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:37.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.098][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:37.099][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:37.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.101][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.103][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:37.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:37.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.108][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:37.110][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:37.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.112][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.114][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:37.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:37.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.119][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:37.120][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:37.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.123][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.124][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:37.125][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.126][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.127][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.129][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:37.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.134][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:37.135][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:37.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.138][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.140][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:37.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:37.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.152][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:37.154][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:37.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.157][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.159][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:37.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:37.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.165][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:37.166][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:37.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.169][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.171][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:37.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:37.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.176][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:37.178][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:37.179][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.180][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.182][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:37.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:37.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:37.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:37.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.193][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:37.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:37.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:37.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:37.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:37.237][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-08-15 19:28:37.239][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.243][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.248][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:37.252][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:37.253][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:37.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:37.261][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:37.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:37.264][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:37.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:37.267][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-08-15 19:28:37.269][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-15 19:28:37.270][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-15 19:28:37.274][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-08-15 19:28:37.276][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-15 19:28:37.277][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-15 19:28:37.279][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-15 19:28:37.281][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:37.282][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:37.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:37.291][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:37.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:37.293][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:37.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:37.297][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.299][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.301][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.306][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:37.308][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:37.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.310][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.311][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:37.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:37.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.337][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:37.339][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:37.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.342][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.344][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:37.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:37.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.349][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:37.350][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:37.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.352][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.354][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:37.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:37.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.358][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:37.359][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:37.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.361][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.363][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:37.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:37.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.368][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:37.382][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:37.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.384][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.386][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:37.387][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.390][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.391][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:37.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.402][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:37.403][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:37.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.406][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.408][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:37.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:37.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.413][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:37.415][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:37.416][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.417][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.419][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:37.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:37.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.425][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:37.426][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:37.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.429][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.430][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:37.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:37.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.436][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:37.437][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:37.439][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.440][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.441][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:37.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:37.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.446][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:37.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:37.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:37.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:37.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:37.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:37.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:37.498][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-08-15 19:28:37.499][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.504][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.508][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:37.519][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:37.520][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:37.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:37.530][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:37.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:37.534][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:37.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:37.537][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-08-15 19:28:37.539][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-15 19:28:37.540][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-15 19:28:37.545][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-08-15 19:28:37.546][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-15 19:28:37.548][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-15 19:28:37.550][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-15 19:28:37.552][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:37.554][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:37.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:37.563][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:37.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:37.566][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:37.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:37.570][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.571][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.574][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.580][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:37.581][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:37.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.583][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.584][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:37.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:37.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.589][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:37.591][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:37.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.593][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.594][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:37.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:37.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.598][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:37.599][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:37.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.601][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.603][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:37.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:37.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.608][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:37.609][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:37.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.612][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.613][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:37.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:37.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.619][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:37.620][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:37.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.622][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.624][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:37.626][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.628][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.630][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:37.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.635][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:37.636][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:37.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.639][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.640][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:37.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:37.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.645][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:37.647][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:37.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.649][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.650][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:37.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:37.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.656][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:37.657][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:37.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.659][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.661][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:37.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:37.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.666][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:37.668][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:37.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.670][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.672][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:37.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:37.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.677][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:37.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:37.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.682][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:37.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:37.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.701][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:37.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:37.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:37.738][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-08-15 19:28:37.739][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.745][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.751][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:37.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:37.757][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:37.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:37.766][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:37.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:37.769][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:37.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:37.771][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-08-15 19:28:37.772][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-15 19:28:37.774][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-15 19:28:37.779][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-08-15 19:28:37.780][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-15 19:28:37.782][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-15 19:28:37.784][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-15 19:28:37.786][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:37.787][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:37.788][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:37.795][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:37.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:37.798][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:37.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:37.803][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.804][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.806][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.808][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.812][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:37.814][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:37.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.815][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.817][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:37.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:37.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.822][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:37.824][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:37.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.826][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.828][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:37.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:37.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.832][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:37.833][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:37.834][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.835][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.836][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:37.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:37.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.841][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:37.842][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:37.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.845][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.846][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:37.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:37.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.851][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:37.852][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:37.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.855][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.857][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:37.858][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.861][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.869][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:37.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.876][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:37.877][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:37.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.880][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.882][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:37.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:37.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.887][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:37.889][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:37.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.891][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.893][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:37.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:37.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.898][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:37.900][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:37.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.902][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.903][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:37.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:37.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.907][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:37.909][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:37.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.911][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.913][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:37.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:37.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:37.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:37.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:37.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:37.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:37.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:37.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:37.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:37.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:37.970][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-08-15 19:28:37.971][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.976][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:37.982][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:37.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:37.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:37.986][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:37.987][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:37.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:37.995][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:37.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:37.997][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:37.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:37.999][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-08-15 19:28:38.000][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-15 19:28:38.002][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-15 19:28:38.006][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-08-15 19:28:38.007][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-15 19:28:38.008][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-15 19:28:38.010][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-15 19:28:38.011][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:38.012][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:38.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:38.020][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:38.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:38.023][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:38.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:38.027][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.028][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.029][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.030][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.047][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:38.048][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:38.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.051][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.052][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:38.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:38.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.057][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:38.058][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:38.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.060][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.062][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:38.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:38.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.067][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:38.068][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:38.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.070][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.071][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:38.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:38.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.076][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:38.077][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:38.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.079][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.080][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:38.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:38.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.086][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:38.087][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:38.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.090][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.092][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:38.093][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.096][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.098][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:38.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.104][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:38.105][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:38.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.108][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.109][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:38.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:38.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.114][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:38.115][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:38.116][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.118][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.119][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:38.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:38.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.124][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:38.125][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:38.126][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.127][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.128][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:38.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:38.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.133][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:38.134][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:38.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.137][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.138][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:38.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:38.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:38.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:38.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.149][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:38.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:38.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.159][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:38.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:38.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:38.194][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-08-15 19:28:38.195][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.208][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.213][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:38.218][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:38.219][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:38.220][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:38.227][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:38.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:38.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:38.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:38.232][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-08-15 19:28:38.233][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-15 19:28:38.235][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-15 19:28:38.238][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-08-15 19:28:38.239][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-15 19:28:38.240][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-15 19:28:38.241][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-15 19:28:38.243][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:38.244][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:38.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:38.253][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:38.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:38.256][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:38.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:38.260][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.261][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.264][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.271][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:38.272][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:38.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.275][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.276][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:38.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:38.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.281][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:38.282][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:38.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.286][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.288][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:38.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:38.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.294][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:38.295][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:38.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.297][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.298][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:38.299][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:38.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.302][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.304][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:38.305][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:38.306][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.307][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.309][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:38.310][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.313][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.315][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:38.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.319][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:38.320][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:38.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.322][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.324][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:38.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:38.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.328][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:38.330][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:38.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.331][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.333][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:38.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:38.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.337][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:38.338][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:38.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.340][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.342][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:38.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:38.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.347][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:38.348][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:38.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.350][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.351][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:38.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:38.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.356][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:38.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:38.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.373][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:38.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:38.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:38.407][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-08-15 19:28:38.408][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.412][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.417][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:38.421][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:38.422][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:38.424][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:38.431][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:38.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:38.432][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:38.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:38.435][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-08-15 19:28:38.436][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-15 19:28:38.437][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-15 19:28:38.440][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-08-15 19:28:38.442][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-15 19:28:38.443][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-15 19:28:38.444][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-15 19:28:38.446][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:38.447][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:38.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:38.455][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:38.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:38.457][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:38.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:38.461][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.462][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.464][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.471][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:38.472][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:38.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.475][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.476][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:38.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:38.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.481][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:38.483][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:38.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.486][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.487][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:38.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:38.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.492][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:38.493][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:38.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.495][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.496][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:38.498][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:38.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.500][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.502][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:38.504][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:38.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.506][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.508][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:38.509][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.511][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.513][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:38.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.517][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:38.518][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:38.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.520][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.528][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:38.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:38.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.534][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:38.536][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:38.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.538][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.540][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:38.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:38.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.544][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:38.546][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:38.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.548][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.550][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:38.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:38.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.554][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:38.556][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:38.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.558][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.560][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:38.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:38.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.564][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:38.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:38.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.573][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:38.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:38.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:38.607][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-08-15 19:28:38.609][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.614][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.619][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:38.624][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:38.625][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:38.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:38.632][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:38.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:38.634][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:38.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:38.636][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-08-15 19:28:38.638][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-15 19:28:38.640][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-15 19:28:38.644][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-08-15 19:28:38.645][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-15 19:28:38.647][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-15 19:28:38.648][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-15 19:28:38.650][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:38.651][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:38.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:38.659][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:38.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:38.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:38.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:38.666][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.667][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.670][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.677][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:38.679][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:38.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.682][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.683][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:38.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:38.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.696][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:38.698][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:38.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.701][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.702][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:38.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:38.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.708][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:38.709][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:38.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.712][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.713][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:38.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:38.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.718][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:38.719][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:38.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.722][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.723][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:38.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:38.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.730][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:38.731][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:38.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.734][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.735][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:38.737][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.738][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.739][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.741][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:38.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.746][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:38.747][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:38.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.750][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.751][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:38.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:38.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.756][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:38.757][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:38.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.759][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.761][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:38.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:38.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.766][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:38.767][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:38.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.769][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.771][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:38.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:38.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.775][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:38.776][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:38.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.778][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.780][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:38.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:38.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.786][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:38.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:38.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:38.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:38.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:38.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:38.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.805][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.820][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:38.836][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-08-15 19:28:38.838][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.843][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.847][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:38.859][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:38.860][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:38.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:38.869][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:38.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:38.872][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:38.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:38.875][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-08-15 19:28:38.876][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-15 19:28:38.879][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-15 19:28:38.884][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-08-15 19:28:38.885][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-15 19:28:38.887][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-15 19:28:38.888][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-15 19:28:38.891][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:38.892][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:38.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:38.901][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:38.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:38.903][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:38.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:38.907][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.908][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.911][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:38.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:38.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.916][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:38.917][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:38.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.920][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.921][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:38.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:38.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.925][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:38.927][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:38.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.929][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.930][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:38.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:38.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.936][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:38.937][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:38.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.939][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.941][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:38.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:38.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.946][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:38.947][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:38.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.949][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.950][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:38.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:38.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.955][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:38.957][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:38.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.959][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.961][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:38.963][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.964][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.965][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.967][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:38.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:38.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.972][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:38.973][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:38.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.976][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.977][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:38.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:38.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.983][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:38.984][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:38.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.987][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.989][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:38.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:38.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:38.995][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:38.996][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:38.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:38.999][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.000][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:39.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:39.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.006][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:39.007][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:39.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.010][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.012][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:39.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:39.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.017][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.023][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.075][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:39.079][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-08-15 19:28:39.081][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.086][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.090][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:39.094][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:39.095][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:39.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:39.103][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:39.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:39.106][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:39.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:39.109][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-08-15 19:28:39.111][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-15 19:28:39.113][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-15 19:28:39.118][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-08-15 19:28:39.119][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-15 19:28:39.121][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-15 19:28:39.122][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-15 19:28:39.125][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:39.126][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:39.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:39.133][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:39.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:39.135][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:39.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:39.139][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.140][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.143][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.145][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.150][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:39.151][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:39.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.153][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.155][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:39.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:39.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.160][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:39.161][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:39.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.164][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.166][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:39.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:39.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.171][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:39.173][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:39.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.175][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.177][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:39.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:39.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.183][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:39.184][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:39.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.187][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.189][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:39.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:39.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.194][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:39.195][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:39.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.198][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.199][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:39.208][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.211][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.214][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:39.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.219][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:39.220][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:39.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.223][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.224][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:39.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:39.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.230][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:39.232][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:39.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.234][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.236][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:39.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:39.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.242][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:39.243][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:39.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.245][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.247][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:39.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:39.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.252][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:39.253][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:39.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.255][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.256][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:39.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:39.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.261][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.271][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.276][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:39.326][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-08-15 19:28:39.328][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.334][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.342][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:39.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:39.348][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:39.350][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:39.357][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:39.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:39.359][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:39.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:39.362][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-08-15 19:28:39.362][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-15 19:28:39.364][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-15 19:28:39.369][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-08-15 19:28:39.370][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-15 19:28:39.372][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-15 19:28:39.374][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-15 19:28:39.376][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:39.377][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:39.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:39.385][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:39.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:39.388][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:39.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:39.399][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.401][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.405][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.413][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:39.414][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:39.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.416][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.418][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:39.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:39.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.423][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:39.425][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:39.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.427][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.428][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:39.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:39.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.434][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:39.435][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:39.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.437][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.438][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:39.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:39.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.443][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:39.444][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:39.445][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.447][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.448][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:39.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:39.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.454][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:39.455][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:39.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.457][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.458][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:39.459][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.462][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.463][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:39.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.468][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:39.470][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:39.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.472][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.474][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:39.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:39.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.479][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:39.480][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:39.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.482][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.483][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:39.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:39.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.489][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:39.490][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:39.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.493][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.494][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:39.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:39.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.500][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:39.501][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:39.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.504][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.505][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:39.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:39.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.510][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:39.566][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-08-15 19:28:39.567][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.573][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:39.584][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:39.586][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:39.587][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:39.593][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:39.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:39.596][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:39.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:39.599][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-08-15 19:28:39.601][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-15 19:28:39.603][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-15 19:28:39.607][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-08-15 19:28:39.609][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-15 19:28:39.611][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-15 19:28:39.612][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-15 19:28:39.614][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:39.615][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:39.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:39.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:39.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:39.625][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:39.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:39.630][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.631][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.633][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.639][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:39.640][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:39.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.643][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.644][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:39.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:39.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.649][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:39.651][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:39.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.653][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.655][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:39.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:39.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.660][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:39.661][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:39.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.664][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.666][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:39.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:39.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.671][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:39.672][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:39.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.675][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.676][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:39.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:39.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.682][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:39.684][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:39.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.686][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.687][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:39.689][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.691][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.693][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:39.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.699][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:39.700][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:39.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.702][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.703][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:39.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:39.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.708][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:39.710][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:39.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.713][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.714][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:39.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:39.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.719][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:39.721][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:39.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.723][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.725][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:39.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:39.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.739][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:39.740][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:39.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.743][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.745][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:39.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:39.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.757][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.768][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:39.802][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-08-15 19:28:39.803][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.808][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.813][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:39.818][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:39.819][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:39.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:39.827][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:39.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:39.829][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:39.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:39.832][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-08-15 19:28:39.832][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-15 19:28:39.834][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-15 19:28:39.838][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-08-15 19:28:39.840][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-15 19:28:39.842][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-15 19:28:39.843][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-15 19:28:39.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:39.847][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:39.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:39.855][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:39.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:39.857][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:39.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:39.862][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.863][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.866][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.871][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:39.873][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:39.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.875][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.876][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:39.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:39.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.881][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:39.883][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:39.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.885][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.887][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:39.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:39.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.893][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:39.894][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:39.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.896][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.904][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:39.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:39.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.912][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:39.913][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:39.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.915][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.917][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:39.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:39.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.922][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:39.923][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:39.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.925][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.927][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:39.928][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.930][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.932][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:39.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:39.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.937][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:39.938][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:39.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.941][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.943][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:39.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:39.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.947][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:39.949][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:39.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.951][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.953][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:39.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:39.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.958][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:39.959][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:39.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.962][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.964][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:39.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:39.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.969][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:39.970][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:39.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.973][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.974][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:39.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:39.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.983][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:39.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:39.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.993][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:39.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:39.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:39.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:40.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:40.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:40.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:40.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:40.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:40.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:40.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:40.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:40.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:40.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:40.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:40.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:40.028][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-08-15 19:28:40.029][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.035][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:40.044][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:40.045][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:40.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:40.053][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:40.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:40.055][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:40.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:40.058][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-08-15 19:28:40.066][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-15 19:28:40.069][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-15 19:28:40.074][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-08-15 19:28:40.075][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-15 19:28:40.077][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-15 19:28:40.079][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-15 19:28:40.081][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:40.082][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:40.083][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:40.091][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:40.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:40.094][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:40.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:40.098][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:40.099][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:40.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.102][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:40.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:40.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.109][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:40.111][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:40.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.113][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.114][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:40.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:40.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.119][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:40.120][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:40.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.123][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.125][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:40.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:40.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.130][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:40.132][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:40.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.134][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.135][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:40.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:40.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.140][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:40.141][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:40.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.144][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.145][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:40.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:40.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.150][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:40.151][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:40.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.154][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.156][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:40.157][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.158][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.160][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.161][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:40.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.167][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:40.168][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:40.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.171][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.172][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:40.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:40.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.176][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:40.177][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:40.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.179][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.181][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:40.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:40.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.186][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:40.187][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:40.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.189][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.190][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:40.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:40.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.195][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:40.196][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:40.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.198][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.200][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:40.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:40.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.204][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:40.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:40.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.209][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:40.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:40.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:40.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:40.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.219][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:40.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:40.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:40.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:40.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.236][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:40.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:40.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:40.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:40.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:40.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:40.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:40.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:40.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:40.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:40.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:40.260][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-08-15 19:28:40.262][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.267][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.272][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-15 19:28:40.304][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-15 19:28:40.308][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:40.311][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-15 19:28:40.313][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-15 19:28:40.317][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:40.318][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:40.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:40.327][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:40.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:40.330][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:40.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:40.332][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.337][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.342][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:40.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:40.347][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:40.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:40.355][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:40.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:40.358][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:40.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:40.360][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.365][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.370][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.375][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.379][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:40.385][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:40.386][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:40.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:40.394][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:40.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:40.397][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:40.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:40.407][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.413][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.417][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.426][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:40.431][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:40.433][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:40.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:40.441][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:40.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:40.443][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:40.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:40.446][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.450][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.455][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.459][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.465][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:40.470][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:40.470][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:40.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:40.480][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:40.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:40.482][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:40.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:40.485][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.491][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.496][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:40.501][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:40.502][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:40.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:40.511][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:40.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:40.514][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:40.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:40.517][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:40.531][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:40.532][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:40.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:40.539][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:40.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:40.541][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:40.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:40.544][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.549][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.554][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:40.560][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:40.561][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:40.562][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:40.576][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:40.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:40.578][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:40.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:40.580][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.585][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.591][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:40.595][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:40.597][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:40.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:40.604][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:40.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:40.607][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:40.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:40.610][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.615][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.621][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:40.626][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:40.627][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:40.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:40.635][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:40.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:40.637][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:40.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:40.640][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.645][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:40.654][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:40.655][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:40.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:40.663][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:40.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:40.666][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:40.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:40.669][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.675][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.680][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:40.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:40.686][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:40.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:40.695][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:40.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:40.698][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:40.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:40.701][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.707][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.713][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:40.717][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:40.719][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:40.720][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:40.727][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:40.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:40.730][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:40.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:40.733][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.739][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.753][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:40.759][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:40.760][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:40.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:40.769][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:40.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:40.772][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:40.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:40.775][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.780][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.786][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:40.792][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:40.793][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:40.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:40.802][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:40.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:40.805][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:40.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:40.808][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.813][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.818][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:40.824][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:40.825][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:40.826][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:40.833][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:40.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:40.836][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:40.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:40.838][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.843][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.848][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:40.853][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:40.855][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:40.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:40.863][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:40.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:40.865][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:40.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:40.868][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.878][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:40.884][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:40.885][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:40.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:40.893][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:40.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:40.895][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:40.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:40.898][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.902][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.907][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:40.913][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:40.914][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:40.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:40.932][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:40.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:40.935][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:40.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:40.939][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.944][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.949][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:40.953][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:40.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:40.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:40.962][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:40.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:40.965][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:40.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:40.968][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.973][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:40.979][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:40.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:40.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.006][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.012][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.017][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-15 19:28:41.064][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-15 19:28:41.067][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:41.070][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-08-15 19:28:41.071][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-15 19:28:41.075][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-15 19:28:41.078][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:41.082][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-08-15 19:28:41.083][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-15 19:28:41.087][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:41.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:41.090][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:41.104][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:41.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:41.106][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:41.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:41.109][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-08-15 19:28:41.111][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-15 19:28:41.112][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-15 19:28:41.116][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-08-15 19:28:41.118][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-15 19:28:41.119][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-15 19:28:41.121][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-15 19:28:41.123][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:41.124][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:41.125][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:41.131][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:41.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:41.134][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:41.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:41.138][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:41.139][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:41.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.142][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:41.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:41.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.149][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:41.150][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:41.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.153][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.154][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:41.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:41.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.159][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:41.160][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:41.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.163][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.165][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:41.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:41.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.170][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:41.172][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:41.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.174][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.176][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:41.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:41.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.182][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:41.183][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:41.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.186][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.187][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:41.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:41.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.193][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:41.194][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:41.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.196][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.198][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:41.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:41.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.203][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:41.204][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:41.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.207][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.208][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:41.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:41.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.213][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.214][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.216][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.218][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.223][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:41.225][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:41.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.227][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.229][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:41.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:41.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.234][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:41.235][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:41.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.237][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.239][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:41.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:41.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.245][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:41.246][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:41.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.249][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.251][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:41.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:41.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:41.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:41.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.262][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:41.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:41.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:41.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:41.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:41.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:41.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:41.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:41.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:41.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:41.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:41.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:41.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:41.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:41.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:41.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:41.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:41.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:41.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:41.320][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-08-15 19:28:41.322][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.327][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:41.335][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:41.336][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:41.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:41.344][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:41.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:41.347][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:41.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:41.350][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.361][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:41.366][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:41.367][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:41.369][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:41.375][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:41.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:41.378][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:41.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:41.381][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-08-15 19:28:41.383][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-15 19:28:41.385][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-15 19:28:41.390][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-08-15 19:28:41.391][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-15 19:28:41.393][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-15 19:28:41.395][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-15 19:28:41.397][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:41.399][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:41.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:41.407][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:41.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:41.410][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:41.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:41.414][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:41.416][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:41.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.418][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:41.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:41.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.425][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:41.426][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:41.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.429][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.430][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:41.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:41.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.436][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:41.437][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:41.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.440][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.441][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:41.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:41.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.446][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:41.455][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:41.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.458][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.460][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:41.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:41.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.466][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:41.468][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:41.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.471][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.473][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:41.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:41.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.478][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:41.479][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:41.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.481][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.482][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:41.484][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:41.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.486][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.487][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:41.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:41.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.493][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.494][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.496][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.497][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.502][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:41.503][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:41.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.506][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.507][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:41.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:41.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.513][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:41.514][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:41.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.516][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.518][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:41.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:41.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.522][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:41.524][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:41.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.526][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.527][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:41.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:41.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.532][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:41.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:41.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.537][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:41.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:41.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:41.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:41.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.547][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:41.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:41.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.553][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:41.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:41.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:41.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:41.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:41.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:41.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:41.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:41.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:41.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:41.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:41.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:41.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:41.582][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-08-15 19:28:41.583][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.589][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-15 19:28:41.630][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-15 19:28:41.633][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:41.637][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-15 19:28:41.638][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-15 19:28:41.642][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:41.643][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:41.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:41.652][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:41.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:41.655][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:41.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:41.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.662][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.668][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:41.673][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:41.674][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:41.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:41.682][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:41.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:41.685][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:41.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:41.687][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.692][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.697][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.701][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.705][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:41.710][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:41.711][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:41.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:41.719][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:41.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:41.722][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:41.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:41.724][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.729][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.733][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.739][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.744][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:41.750][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:41.751][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:41.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:41.761][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:41.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:41.763][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:41.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:41.766][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.772][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.777][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.781][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.795][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:41.802][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:41.803][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:41.805][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:41.812][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:41.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:41.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:41.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:41.817][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.821][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.826][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:41.832][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:41.832][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:41.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:41.840][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:41.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:41.843][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:41.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:41.845][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.850][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:41.860][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:41.861][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:41.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:41.869][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:41.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:41.872][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:41.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:41.875][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.881][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.886][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:41.891][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:41.892][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:41.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:41.900][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:41.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:41.903][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:41.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:41.906][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.912][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.916][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:41.920][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:41.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:41.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:41.928][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:41.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:41.931][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:41.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:41.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:41.950][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:41.951][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:41.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:41.959][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:41.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:41.969][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:41.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:41.972][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.978][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:41.983][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:41.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:41.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:41.988][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:41.989][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:41.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:41.998][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:41.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.000][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.003][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.008][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.014][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:42.019][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.020][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.029][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.031][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.034][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.039][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:42.048][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.049][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.060][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.063][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.067][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:42.078][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.079][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.080][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.087][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.090][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.098][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.103][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:42.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.117][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.120][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.123][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.127][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.133][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:42.146][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.147][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.149][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.155][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.158][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.166][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:42.175][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.176][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.184][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.187][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.189][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:42.205][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.207][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.215][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.218][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.220][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:42.236][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.237][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.246][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.249][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.269][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.275][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:42.281][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.283][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.287][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.294][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.296][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.299][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.303][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.309][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-15 19:28:42.346][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-15 19:28:42.350][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:42.354][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-15 19:28:42.355][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-15 19:28:42.359][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.360][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.369][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:42.388][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.389][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.398][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.400][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.403][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.407][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.412][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.417][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.422][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:42.426][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.428][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.429][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.437][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.439][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.442][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.446][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.451][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.460][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:42.465][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.466][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.475][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.477][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.480][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.495][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.507][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:42.513][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.514][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.522][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.525][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.528][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.537][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:42.541][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.542][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.543][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.550][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.553][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.556][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.568][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:42.573][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.583][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.585][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.588][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.593][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.597][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:42.601][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.602][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.611][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.613][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.616][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.621][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.626][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:42.630][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.631][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.643][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.648][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:42.664][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.664][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.665][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.672][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.682][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.692][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.697][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:42.702][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.703][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.711][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.716][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.721][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.727][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:42.732][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.732][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.734][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.741][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.744][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.758][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:42.763][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.764][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.765][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.773][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.777][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.787][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:42.792][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.794][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.795][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.802][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.805][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.813][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.820][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:42.824][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.826][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.827][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.834][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.837][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.839][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.844][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.849][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:42.863][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.876][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.889][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:42.894][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.895][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.903][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.906][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.908][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.917][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:42.923][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.924][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.932][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.934][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.937][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.947][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:42.952][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.953][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.961][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.963][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:42.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:42.980][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:42.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:42.987][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:42.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:42.990][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:42.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:42.992][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:42.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:42.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:42.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.001][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:43.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:43.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.037][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-15 19:28:43.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-15 19:28:43.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-15 19:28:43.055][biodb::testThat]
biodb.INFO [2025-08-15 19:28:43.057][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-08-15 19:28:43.058][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-15 19:28:43.060][biodb::testThat]
biodb.TRACE[2025-08-15 19:28:43.064][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-15 19:28:43.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-15 19:28:43.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.069][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:43.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:43.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.075][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:43.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:43.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.080][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:43.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:43.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:43.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:43.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:43.093][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:43.095][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:43.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:43.102][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:43.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:43.105][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:43.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-15 19:28:43.110][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-15 19:28:43.114][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:43.116][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-08-15 19:28:43.118][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-15 19:28:43.121][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:43.122][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:43.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:43.131][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:43.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:43.133][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:43.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:43.136][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:43.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:43.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.141][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:43.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:43.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.145][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:43.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:43.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-15 19:28:43.152][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-15 19:28:43.155][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:43.158][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-08-15 19:28:43.159][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-15 19:28:43.163][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:43.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:43.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:43.173][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:43.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:43.176][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:43.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:43.179][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:43.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:43.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.183][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:43.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:43.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.188][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:43.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:43.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:43.192][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:43.193][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:43.194][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:43.202][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:43.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:43.205][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:43.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:43.215][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:43.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:43.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.222][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:43.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:43.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.228][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:43.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:43.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:43.233][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-15 19:28:43.235][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:43.237][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:43.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:43.245][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:43.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:43.247][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:43.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:43.250][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.260][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:43.262][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-15 19:28:43.263][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-15 19:28:43.264][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-15 19:28:43.265][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:43.267][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.268][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.271][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.272][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.273][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.276][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.277][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:43.278][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:43.279][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.281][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.283][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.285][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-15 19:28:43.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.291][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.313][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-08-15 19:28:43.315][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:43.317][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:43.319][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:43.326][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:43.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:43.329][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:43.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:43.332][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.337][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.343][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:43.344][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-15 19:28:43.346][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-15 19:28:43.347][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-15 19:28:43.348][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:43.349][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.350][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.352][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.353][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.355][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.357][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.358][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:43.360][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:43.361][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.363][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.365][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.367][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-15 19:28:43.368][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.373][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.386][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.393][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-15 19:28:43.395][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:43.396][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:43.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:43.404][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:43.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:43.407][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:43.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:43.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.416][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.422][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:43.423][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-15 19:28:43.424][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-15 19:28:43.426][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-15 19:28:43.427][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:43.429][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.430][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.433][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.434][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.435][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.438][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.439][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:43.440][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:43.442][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.443][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.446][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.447][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-15 19:28:43.448][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.453][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.457][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.462][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-08-15 19:28:43.464][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-15 19:28:43.465][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-15 19:28:43.478][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:43.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:43.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.483][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:43.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:43.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.488][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:43.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:43.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.493][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:43.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:43.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:43.575][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:43.576][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:43.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:43.585][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:43.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:43.588][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:43.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-15 19:28:43.593][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-15 19:28:43.597][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:43.599][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-08-15 19:28:43.601][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-15 19:28:43.604][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-15 19:28:43.608][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:43.611][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-08-15 19:28:43.612][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-15 19:28:43.615][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:43.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:43.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:43.624][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:43.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:43.627][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:43.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:43.629][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:43.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:43.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.634][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:43.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:43.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.640][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:43.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:43.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:43.645][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:43.646][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:43.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:43.655][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:43.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:43.658][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:43.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:43.661][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:43.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:43.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.668][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:43.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:43.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.673][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:43.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:43.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:43.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:43.681][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:43.682][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:43.691][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:43.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:43.694][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:43.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:43.697][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:43.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:43.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.703][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:43.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:43.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.718][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:43.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:43.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:43.764][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-15 19:28:43.801][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:43.803][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:43.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:43.812][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:43.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:43.815][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:43.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:43.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.825][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.830][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:43.831][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-15 19:28:43.833][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-15 19:28:43.834][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-15 19:28:43.836][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:43.837][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.838][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.841][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.843][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.844][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.847][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.848][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:43.849][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:43.851][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.852][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.853][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.855][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.856][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-15 19:28:43.858][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.864][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.868][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.873][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-15 19:28:43.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:43.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:43.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:43.891][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:43.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:43.894][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:43.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:43.915][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.921][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.955][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:43.956][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-15 19:28:43.957][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-15 19:28:43.959][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-15 19:28:43.960][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:43.961][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.962][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.964][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.966][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.967][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.968][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.969][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.971][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:43.985][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:43.986][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.988][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.991][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.992][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-15 19:28:43.993][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:43.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:43.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:43.999][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.004][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.009][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-15 19:28:44.010][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:44.011][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:44.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:44.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:44.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:44.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:44.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:44.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.029][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.042][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:44.043][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-15 19:28:44.045][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-15 19:28:44.046][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-15 19:28:44.047][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:44.048][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.050][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.052][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.053][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.054][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.057][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.058][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:44.059][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:44.061][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.062][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.064][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.065][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-15 19:28:44.067][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.071][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.081][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-15 19:28:44.082][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-15 19:28:44.083][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-15 19:28:44.096][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-15 19:28:44.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-15 19:28:44.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-15 19:28:44.107][biodb::testThat]
biodb.INFO [2025-08-15 19:28:44.108][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-08-15 19:28:44.109][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-15 19:28:44.111][biodb::testThat]
biodb.TRACE[2025-08-15 19:28:44.115][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-15 19:28:44.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-15 19:28:44.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.121][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:44.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:44.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.127][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:44.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:44.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.132][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:44.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:44.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.137][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:44.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:44.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:44.145][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:44.147][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:44.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:44.155][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:44.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:44.158][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:44.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-15 19:28:44.163][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-15 19:28:44.166][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:44.168][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-08-15 19:28:44.169][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-15 19:28:44.173][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:44.174][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:44.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:44.182][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:44.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:44.184][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:44.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:44.187][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:44.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:44.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.191][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:44.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:44.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.195][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:44.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:44.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-15 19:28:44.208][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-15 19:28:44.212][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:44.215][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-08-15 19:28:44.216][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-15 19:28:44.219][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:44.220][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:44.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:44.228][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:44.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:44.230][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:44.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:44.234][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:44.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:44.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.239][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:44.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:44.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.245][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:44.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:44.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:44.250][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:44.251][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:44.252][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:44.260][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:44.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:44.262][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:44.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:44.266][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:44.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:44.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.271][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:44.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:44.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.276][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:44.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:44.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:44.282][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-15 19:28:44.285][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:44.286][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:44.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:44.295][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:44.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:44.298][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:44.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:44.302][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.307][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.313][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:44.314][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-15 19:28:44.315][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-15 19:28:44.317][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-15 19:28:44.318][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:44.319][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.321][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.324][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.325][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.327][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.330][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.331][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:44.332][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:44.334][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.335][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.337][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.339][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-15 19:28:44.340][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.345][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.350][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.357][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-08-15 19:28:44.358][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:44.359][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:44.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:44.367][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:44.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:44.370][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:44.371][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[2025-08-15 19:28:44.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.377][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.392][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:44.393][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-15 19:28:44.395][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-15 19:28:44.396][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-15 19:28:44.398][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:44.399][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.401][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.403][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.405][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.406][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.407][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.409][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.410][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:44.411][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:44.412][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.414][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.417][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.418][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-15 19:28:44.419][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.430][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.436][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-15 19:28:44.437][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:44.438][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:44.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:44.445][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:44.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:44.448][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:44.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:44.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.460][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:44.461][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-15 19:28:44.462][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-15 19:28:44.463][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-15 19:28:44.464][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:44.465][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.467][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.469][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.470][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.471][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.473][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.474][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:44.476][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:44.477][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.478][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.481][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.482][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-15 19:28:44.483][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.489][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.493][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.499][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-08-15 19:28:44.500][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-15 19:28:44.501][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-15 19:28:44.514][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:44.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:44.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.518][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:44.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:44.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.523][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:44.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:44.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:44.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:44.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:44.537][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:44.538][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:44.538][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:44.726][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:44.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:44.729][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:44.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-15 19:28:44.734][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-15 19:28:44.738][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:44.741][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-08-15 19:28:44.742][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-15 19:28:44.746][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-15 19:28:44.749][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:44.752][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-08-15 19:28:44.754][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-15 19:28:44.757][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:44.758][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:44.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:44.767][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:44.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:44.770][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:44.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:44.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:44.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:44.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:44.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:44.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:44.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:44.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:44.789][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:44.790][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:44.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:44.799][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:44.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:44.802][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:44.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:44.805][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:44.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:44.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:44.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:44.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.817][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:44.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:44.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:44.822][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:44.823][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:44.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:44.833][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:44.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:44.835][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:44.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:44.838][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:44.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:44.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.844][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:44.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:44.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.849][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:44.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:44.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:44.854][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-15 19:28:44.857][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:44.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:44.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:44.867][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:44.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:44.870][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:44.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:44.876][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.887][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:44.888][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-15 19:28:44.889][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-15 19:28:44.891][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-15 19:28:44.892][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:44.893][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.895][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.898][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.899][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.900][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.903][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.905][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:44.906][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:44.907][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.909][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.911][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.912][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-15 19:28:44.914][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.920][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.926][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.933][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-15 19:28:44.935][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:44.936][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:44.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:44.948][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:44.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:44.951][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:44.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:44.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:44.986][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:44.988][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-15 19:28:44.990][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-15 19:28:44.991][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-15 19:28:44.993][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:44.995][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.996][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:44.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:44.999][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.000][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.002][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.005][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.006][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.008][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.011][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.014][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.017][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.019][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-15 19:28:45.020][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.033][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.038][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-15 19:28:45.039][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:45.040][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:45.042][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:45.049][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:45.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:45.053][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:45.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:45.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.060][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.065][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.067][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-15 19:28:45.068][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-15 19:28:45.069][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-15 19:28:45.070][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.071][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.072][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.074][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.075][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.076][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.079][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.080][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.081][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.082][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.084][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.085][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.086][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.087][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-15 19:28:45.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.093][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.098][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.103][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-15 19:28:45.104][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-15 19:28:45.105][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-15 19:28:45.118][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-15 19:28:45.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-15 19:28:45.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-15 19:28:45.129][biodb::testThat]
biodb.INFO [2025-08-15 19:28:45.131][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-08-15 19:28:45.133][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-15 19:28:45.134][biodb::testThat]
biodb.TRACE[2025-08-15 19:28:45.139][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-15 19:28:45.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-15 19:28:45.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.145][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:45.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:45.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.150][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:45.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:45.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.156][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:45.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:45.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.161][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:45.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:45.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:45.171][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:45.173][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:45.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:45.182][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:45.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:45.185][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:45.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-15 19:28:45.190][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-15 19:28:45.200][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:45.203][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-08-15 19:28:45.204][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-15 19:28:45.206][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:45.208][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:45.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:45.215][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:45.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:45.218][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:45.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:45.221][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:45.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:45.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.226][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:45.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:45.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.231][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:45.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:45.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-15 19:28:45.237][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-15 19:28:45.240][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:45.243][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-08-15 19:28:45.244][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-15 19:28:45.247][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:45.248][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:45.249][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:45.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:45.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:45.259][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:45.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:45.262][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:45.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:45.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.266][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:45.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:45.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.271][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:45.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:45.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:45.275][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:45.276][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:45.277][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:45.283][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:45.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:45.285][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:45.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:45.287][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:45.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:45.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.291][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:45.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:45.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.295][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:45.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:45.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:45.300][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-15 19:28:45.301][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:45.302][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:45.304][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:45.310][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:45.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:45.312][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:45.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:45.314][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.319][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.324][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.325][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-15 19:28:45.327][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-15 19:28:45.328][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-15 19:28:45.329][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.330][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.332][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.334][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.335][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.336][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.338][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.339][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.340][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.341][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.342][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.343][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.345][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.346][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-15 19:28:45.347][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.358][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.363][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-08-15 19:28:45.365][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:45.366][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:45.367][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:45.375][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:45.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:45.377][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:45.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:45.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.384][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.389][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.391][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-15 19:28:45.392][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-15 19:28:45.393][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-15 19:28:45.395][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.396][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.397][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.400][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.402][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.403][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.406][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.407][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.409][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.410][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.411][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.414][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.415][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-15 19:28:45.417][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.421][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.426][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.433][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-15 19:28:45.434][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:45.435][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:45.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:45.444][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:45.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:45.446][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:45.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:45.448][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.453][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.458][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.460][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-15 19:28:45.461][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-15 19:28:45.462][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-15 19:28:45.464][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.465][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.466][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.469][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.470][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.472][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.475][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.476][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.478][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.479][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.481][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.483][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.485][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-15 19:28:45.487][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.493][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.498][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.504][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-08-15 19:28:45.505][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-15 19:28:45.506][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-15 19:28:45.536][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:45.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:45.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:45.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:45.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:45.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:45.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.552][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:45.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:45.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:45.560][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:45.561][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:45.562][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:45.569][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:45.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:45.571][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:45.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-15 19:28:45.577][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-15 19:28:45.580][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:45.582][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-08-15 19:28:45.583][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-15 19:28:45.588][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-15 19:28:45.592][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:45.594][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-08-15 19:28:45.596][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-15 19:28:45.599][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:45.606][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:45.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:45.615][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:45.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:45.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:45.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:45.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:45.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:45.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:45.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:45.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.629][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:45.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:45.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:45.634][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:45.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:45.636][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:45.642][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:45.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:45.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:45.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:45.647][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:45.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:45.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.651][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:45.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:45.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.655][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:45.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:45.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:45.660][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:45.661][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:45.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:45.669][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:45.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:45.671][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:45.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:45.673][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:45.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:45.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.678][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:45.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:45.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.682][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:45.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:45.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:45.686][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-15 19:28:45.688][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:45.689][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:45.690][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:45.696][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:45.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:45.698][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:45.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:45.701][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.709][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.711][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-15 19:28:45.712][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-15 19:28:45.713][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-15 19:28:45.714][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.715][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.716][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.718][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.719][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.720][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.723][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.724][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.725][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.726][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.728][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.729][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.730][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-15 19:28:45.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.742][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.748][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-15 19:28:45.749][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:45.750][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:45.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:45.759][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:45.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:45.762][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:45.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:45.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.769][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.773][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.774][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-15 19:28:45.775][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-15 19:28:45.776][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-15 19:28:45.777][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.778][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.780][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.782][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.784][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.785][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.788][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.790][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.791][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.792][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.793][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.795][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.796][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-15 19:28:45.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.806][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.811][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-15 19:28:45.813][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:45.814][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:45.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:45.823][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:45.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:45.825][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:45.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:45.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.833][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.837][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.838][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-15 19:28:45.840][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-15 19:28:45.841][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-15 19:28:45.842][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.843][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.844][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.846][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.847][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.848][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.851][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.852][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.853][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-15 19:28:45.855][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.856][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.857][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.858][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.859][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-15 19:28:45.860][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.865][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.870][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:45.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.876][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-15 19:28:45.877][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-15 19:28:45.878][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-15 19:28:45.907][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-15 19:28:45.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-15 19:28:45.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-15 19:28:45.918][biodb::testThat]
biodb.INFO [2025-08-15 19:28:45.919][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-08-15 19:28:45.920][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-15 19:28:45.921][biodb::testThat]
biodb.DEBUG[2025-08-15 19:28:45.924][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-08-15 19:28:45.925][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-15 19:28:45.927][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-15 19:28:45.930][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-08-15 19:28:45.931][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-15 19:28:45.933][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-15 19:28:45.934][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-15 19:28:45.936][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:45.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:45.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:45.944][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:45.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:45.947][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:45.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:45.951][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:45.952][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:45.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.955][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:45.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:45.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.961][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:45.963][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:45.964][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.965][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.966][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:45.967][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:45.968][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.969][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.971][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:45.973][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:45.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.975][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.976][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:45.977][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:45.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.979][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.981][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:45.982][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:45.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.984][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.986][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:45.993][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:45.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:45.996][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:45.997][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:45.999][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:46.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.001][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.003][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:46.004][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:46.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.006][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.008][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:46.009][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:46.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.011][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.013][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:46.014][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:46.015][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.016][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.018][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:46.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:46.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.023][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:46.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:46.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:46.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:46.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.041][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:46.064][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-08-15 19:28:46.065][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-08-15 19:28:46.076][biodb::testThat]
biodb.INFO [2025-08-15 19:28:46.077][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-08-15 19:28:46.078][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-15 19:28:46.079][biodb::testThat]
biodb.DEBUG[2025-08-15 19:28:46.089][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-08-15 19:28:46.090][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-08-15 19:28:46.092][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-08-15 19:28:46.094][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-15 19:28:46.096][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-08-15 19:28:46.101][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-08-15 19:28:46.105][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-08-15 19:28:46.106][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-15 19:28:46.108][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-08-15 19:28:46.109][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-08-15 19:28:46.111][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:46.112][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:46.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:46.120][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:46.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:46.123][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:46.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:46.127][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.128][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.130][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.137][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:46.139][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:46.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.141][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.142][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:46.144][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:46.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.146][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.148][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:46.149][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:46.151][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.152][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.153][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:46.155][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:46.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.157][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.159][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:46.160][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:46.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.162][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.164][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:46.165][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:46.166][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.167][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.169][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:46.170][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:46.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.173][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.175][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:46.176][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:46.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.178][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.180][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:46.181][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:46.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.184][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.185][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:46.187][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:46.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.189][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.191][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:46.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:46.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:46.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:46.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:46.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:46.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.222][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:46.227][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:46.228][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:46.228][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:46.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:46.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:46.237][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:46.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:46.241][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.242][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.245][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.251][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:46.253][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:46.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.255][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.257][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:46.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:46.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.263][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:46.264][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:46.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.267][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.269][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:46.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:46.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.274][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:46.276][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:46.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.278][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.280][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:46.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:46.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.285][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:46.286][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:46.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.288][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.290][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:46.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:46.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.294][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:46.296][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:46.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.298][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.300][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:46.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:46.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.305][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:46.307][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:46.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.309][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.311][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:46.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:46.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.315][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:46.317][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:46.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.319][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.320][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:46.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:46.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.325][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:46.326][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:46.327][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.328][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.330][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:46.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:46.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.335][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:46.337][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:46.338][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.339][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.341][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:46.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:46.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.346][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:46.347][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:46.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.350][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.351][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:46.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:46.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.357][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:46.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:46.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:46.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:46.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.373][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:46.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:46.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:46.401][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:46.402][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:46.403][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:46.410][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:46.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:46.412][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:46.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:46.417][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.418][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.421][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.428][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:46.429][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:46.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.431][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.433][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:46.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:46.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.438][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:46.440][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:46.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.442][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.444][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:46.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:46.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.448][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:46.450][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:46.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.452][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.453][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:46.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:46.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.458][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:46.459][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:46.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.461][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.463][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:46.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:46.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.467][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:46.468][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:46.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.470][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.472][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:46.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:46.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.477][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:46.478][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:46.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.481][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.483][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:46.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:46.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.487][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:46.488][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:46.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.490][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.491][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:46.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:46.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.496][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:46.497][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:46.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.499][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.501][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:46.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:46.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.507][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:46.508][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:46.509][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.510][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.512][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:46.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:46.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.517][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:46.518][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:46.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.521][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.522][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:46.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:46.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.528][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:46.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:46.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.533][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:46.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:46.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.544][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:46.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:46.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.565][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.599][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:46.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:46.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:46.610][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-08-15 19:28:46.611][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-08-15 19:28:46.612][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-08-15 19:28:46.632][biodb::testThat]
biodb.INFO [2025-08-15 19:28:46.633][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-08-15 19:28:46.635][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-15 19:28:46.636][biodb::testThat]
biodb.INFO [2025-08-15 19:28:46.670][biodb::testThat]
biodb.INFO [2025-08-15 19:28:46.672][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-08-15 19:28:46.673][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-15 19:28:46.675][biodb::testThat]
biodb.INFO [2025-08-15 19:28:46.687][biodb::testThat]
biodb.INFO [2025-08-15 19:28:46.689][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-08-15 19:28:46.690][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-15 19:28:46.691][biodb::testThat]
sched.DEBUG[2025-08-15 19:28:46.695][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-08-15 19:28:46.698][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:46.705][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-08-15 19:28:46.706][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-08-15 19:28:46.722][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:46.723][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:46.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.727][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:46.728][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:46.730][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:46.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:46.732][ef$get] fields variable is a list.
biodb.INFO [2025-08-15 19:28:46.734][biodb::testThat]
biodb.INFO [2025-08-15 19:28:46.735][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-08-15 19:28:46.737][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-15 19:28:46.738][biodb::testThat]
biodb.ERROR[2025-08-15 19:28:46.758][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-08-15 19:28:46.776][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-08-15 19:28:46.802][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-08-15 19:28:46.804][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-08-15 19:28:46.806][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-15 19:28:46.807][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:46.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:46.809][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:46.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:46.812][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:46.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-15 19:28:46.824][biodb::testContext]
biodb.INFO [2025-08-15 19:28:46.825][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-15 19:28:46.827][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-08-15 19:28:46.828][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-15 19:28:46.830][biodb::testContext]
biodb.INFO [2025-08-15 19:28:46.833][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-15 19:28:46.835][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-08-15 19:28:46.840][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-15 19:28:46.842][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-15 19:28:46.843][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-15 19:28:46.844][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:46.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:46.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:46.848][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-15 19:28:46.850][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-15 19:28:46.851][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:46.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:46.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:46.854][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-15 19:28:46.855][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-15 19:28:46.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:46.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:46.859][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[2025-08-15 19:28:46.860][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-15 19:28:46.861][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-15 19:28:46.863][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-15 19:28:46.864][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:46.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:46.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:46.867][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-15 19:28:46.868][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-15 19:28:46.870][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-15 19:28:46.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:46.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:46.873][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[2025-08-15 19:28:46.874][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-15 19:28:46.875][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-15 19:28:46.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:46.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:46.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:46.879][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-15 19:28:46.880][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-15 19:28:46.882][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-15 19:28:46.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:46.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:46.884][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[2025-08-15 19:28:46.886][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-15 19:28:46.887][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-15 19:28:46.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:46.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:46.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:46.890][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-15 19:28:46.892][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-15 19:28:46.893][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-15 19:28:46.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:46.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:46.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:46.897][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-15 19:28:46.898][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-15 19:28:46.899][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-15 19:28:46.900][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-15 19:28:46.901][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-15 19:28:46.903][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-15 19:28:46.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:46.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:46.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:46.907][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-15 19:28:46.908][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-15 19:28:46.909][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:46.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:46.911][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[2025-08-15 19:28:46.912][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-15 19:28:46.913][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-15 19:28:46.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:46.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:46.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:46.917][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-15 19:28:46.918][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-15 19:28:46.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:46.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:46.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:46.923][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-15 19:28:46.924][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-15 19:28:46.925][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-15 19:28:46.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:46.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:46.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:46.929][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-15 19:28:46.930][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-15 19:28:46.953][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-15 19:28:46.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:46.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:46.957][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[2025-08-15 19:28:46.959][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-15 19:28:46.960][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-15 19:28:46.961][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-15 19:28:46.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:46.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:46.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:46.966][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-15 19:28:46.968][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:46.969][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-15 19:28:46.970][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:46.972][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-15 19:28:46.973][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:46.974][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-15 19:28:46.975][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:46.976][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-15 19:28:46.977][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-15 19:28:46.979][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-15 19:28:46.980][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:46.981][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-15 19:28:46.983][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-15 19:28:46.984][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:46.985][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:46.987][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-15 19:28:46.987][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-15 19:28:46.987][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-15 19:28:46.987][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-15 19:28:46.987][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-15 19:28:46.988][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-15 19:28:46.989][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:46.990][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:46.992][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-15 19:28:46.993][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:46.994][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:46.995][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-15 19:28:46.996][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:46.997][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-15 19:28:46.998][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-15 19:28:47.000][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:47.001][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:47.003][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-15 19:28:47.005][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:47.006][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-15 19:28:47.008][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:47.008][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-15 19:28:47.009][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:47.011][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-15 19:28:47.012][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:47.013][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-15 19:28:47.015][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-15 19:28:47.016][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-15 19:28:47.017][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:47.018][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-15 19:28:47.019][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-15 19:28:47.020][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:47.022][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:47.023][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-15 19:28:47.023][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-15 19:28:47.023][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-15 19:28:47.023][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-15 19:28:47.023][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-15 19:28:47.025][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-15 19:28:47.026][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:47.027][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:47.028][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-15 19:28:47.030][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:47.031][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:47.032][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-15 19:28:47.034][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:47.035][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-15 19:28:47.036][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-15 19:28:47.037][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:47.038][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:47.040][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-15 19:28:47.042][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:47.043][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-15 19:28:47.044][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:47.046][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-15 19:28:47.047][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:47.048][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-15 19:28:47.050][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:47.051][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-15 19:28:47.052][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-15 19:28:47.053][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-15 19:28:47.054][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:47.055][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-15 19:28:47.057][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-15 19:28:47.058][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:47.059][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:47.060][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:47.062][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-15 19:28:47.063][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:47.064][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:47.065][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-15 19:28:47.066][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:47.067][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:47.068][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-15 19:28:47.070][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:47.071][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-15 19:28:47.072][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-15 19:28:47.073][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:47.074][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:47.075][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-15 19:28:47.077][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:47.078][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-15 19:28:47.079][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:47.080][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-15 19:28:47.082][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:47.083][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-15 19:28:47.084][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:47.086][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-15 19:28:47.087][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-15 19:28:47.088][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-15 19:28:47.089][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:47.091][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-15 19:28:47.092][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-15 19:28:47.093][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:47.095][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:47.096][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:47.097][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-15 19:28:47.098][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:47.099][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:47.100][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-15 19:28:47.101][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:47.102][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:47.103][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-15 19:28:47.105][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:47.106][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-15 19:28:47.107][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-15 19:28:47.109][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:47.110][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:47.112][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-15 19:28:47.113][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.115][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.121][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.127][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.132][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.143][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.148][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.154][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.159][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.186][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.190][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.195][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[2025-08-15 19:28:47.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.200][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.DEBUG[2025-08-15 19:28:47.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.212][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-15 19:28:47.213][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-15 19:28:47.215][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-15 19:28:47.216][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-15 19:28:47.218][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-15 19:28:47.220][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-15 19:28:47.222][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-15 19:28:47.224][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-15 19:28:47.226][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-15 19:28:47.227][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-15 19:28:47.229][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-15 19:28:47.231][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-15 19:28:47.233][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-15 19:28:47.234][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-15 19:28:47.236][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-15 19:28:47.238][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-15 19:28:47.239][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-15 19:28:47.241][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-15 19:28:47.243][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-15 19:28:47.245][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-15 19:28:47.246][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-15 19:28:47.248][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-15 19:28:47.250][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-15 19:28:47.252][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-15 19:28:47.254][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-15 19:28:47.255][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-15 19:28:47.257][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-15 19:28:47.258][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-15 19:28:47.260][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-15 19:28:47.262][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-15 19:28:47.264][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-15 19:28:47.265][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-15 19:28:47.267][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-15 19:28:47.269][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-15 19:28:47.271][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-15 19:28:47.272][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-15 19:28:47.274][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-15 19:28:47.275][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-15 19:28:47.277][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-15 19:28:47.279][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-15 19:28:47.281][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-15 19:28:47.283][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-15 19:28:47.284][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-15 19:28:47.286][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-15 19:28:47.288][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-15 19:28:47.290][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-15 19:28:47.291][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-15 19:28:47.293][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-15 19:28:47.295][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-15 19:28:47.296][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-15 19:28:47.298][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-15 19:28:47.300][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-15 19:28:47.302][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-15 19:28:47.304][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-15 19:28:47.305][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-15 19:28:47.307][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-15 19:28:47.308][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-15 19:28:47.310][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-15 19:28:47.311][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-15 19:28:47.313][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-15 19:28:47.314][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-15 19:28:47.315][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-15 19:28:47.317][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-15 19:28:47.318][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-15 19:28:47.320][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-15 19:28:47.321][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-15 19:28:47.323][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-15 19:28:47.324][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-15 19:28:47.326][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-15 19:28:47.328][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-15 19:28:47.330][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-15 19:28:47.332][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-15 19:28:47.333][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-15 19:28:47.334][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-15 19:28:47.336][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-15 19:28:47.338][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-15 19:28:47.339][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-15 19:28:47.341][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-15 19:28:47.344][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-15 19:28:47.345][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-15 19:28:47.347][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-15 19:28:47.348][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-15 19:28:47.350][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-15 19:28:47.352][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-15 19:28:47.354][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-08-15 19:28:47.355][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-15 19:28:47.356][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.358][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:47.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:47.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.367][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[2025-08-15 19:28:47.368][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:47.371][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:47.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.376][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:47.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:47.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:47.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:47.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:47.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:47.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:47.398][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:47.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:47.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:47.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:47.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:47.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:47.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:47.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:47.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:47.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:47.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:47.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:47.447][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:47.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:47.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:47.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:47.478][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:47.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.483][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[2025-08-15 19:28:47.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:47.487][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:47.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:47.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:47.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.503][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[2025-08-15 19:28:47.506][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-08-15 19:28:47.508][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-08-15 19:28:47.511][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:47.513][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-15 19:28:47.514][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:47.516][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-15 19:28:47.517][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:47.518][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-15 19:28:47.520][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:47.521][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-15 19:28:47.522][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-15 19:28:47.523][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-15 19:28:47.525][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:47.526][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-08-15 19:28:47.527][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-15 19:28:47.529][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-15 19:28:47.529][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-08-15 19:28:47.529][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-15 19:28:47.529][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-15 19:28:47.529][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-15 19:28:47.529][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-08-15 19:28:47.529][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-15 19:28:47.529][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-15 19:28:47.529][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-08-15 19:28:47.529][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-15 19:28:47.529][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-15 19:28:47.532][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:47.533][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-15 19:28:47.533][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-15 19:28:47.533][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-15 19:28:47.535][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-15 19:28:47.536][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:47.537][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:47.538][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-15 19:28:47.539][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:47.540][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:47.542][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-15 19:28:47.543][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-15 19:28:47.543][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-15 19:28:47.545][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-15 19:28:47.546][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-15 19:28:47.547][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:47.548][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-15 19:28:47.548][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-15 19:28:47.550][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-15 19:28:47.553][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-15 19:28:47.555][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-08-15 19:28:47.557][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-15 19:28:47.559][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-15 19:28:47.561][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-15 19:28:47.573][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-08-15 19:28:47.581][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-08-15 19:28:47.583][biodb::testThat]
biodb.INFO [2025-08-15 19:28:47.585][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-08-15 19:28:47.586][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-15 19:28:47.587][biodb::testThat]
sched.DEBUG[2025-08-15 19:28:47.590][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-08-15 19:28:47.593][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:47.599][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-08-15 19:28:47.601][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-15 19:28:47.605][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 [2025-08-15 19:28:47.609][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:47.611][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-08-15 19:28:47.613][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-15 19:28:47.615][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:47.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:47.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:47.625][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.628][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.629][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".
sched.DEBUG[2025-08-15 19:28:47.631][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 [2025-08-15 19:28:47.634][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:47.637][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-08-15 19:28:47.639][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-15 19:28:47.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:47.643][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:47.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:47.652][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.655][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:47.681][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:47.682][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:47.689][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.692][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-15 19:28:47.700][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 [2025-08-15 19:28:47.703][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:47.706][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-08-15 19:28:47.708][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-15 19:28:47.710][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:47.711][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:47.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:47.719][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.721][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.722][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".
sched.DEBUG[2025-08-15 19:28:47.725][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 [2025-08-15 19:28:47.728][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:47.731][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-08-15 19:28:47.732][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-15 19:28:47.734][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:47.735][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:47.736][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:47.743][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.746][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.749][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:47.750][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:47.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:47.758][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.760][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-15 19:28:47.767][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 [2025-08-15 19:28:47.771][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:47.773][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-08-15 19:28:47.775][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-15 19:28:47.777][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:47.779][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:47.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:47.787][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.790][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.791][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".
sched.DEBUG[2025-08-15 19:28:47.794][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 [2025-08-15 19:28:47.797][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:47.800][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-08-15 19:28:47.801][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-15 19:28:47.803][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:47.804][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:47.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:47.812][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-15 19:28:47.817][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 [2025-08-15 19:28:47.821][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:47.824][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-08-15 19:28:47.826][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-15 19:28:47.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:47.829][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:47.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:47.837][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.841][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.INFO [2025-08-15 19:28:47.850][biodb::testThat]
biodb.INFO [2025-08-15 19:28:47.852][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-08-15 19:28:47.853][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-15 19:28:47.854][biodb::testThat]
sched.DEBUG[2025-08-15 19:28:47.859][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 [2025-08-15 19:28:47.862][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:47.865][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-08-15 19:28:47.867][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-15 19:28:47.869][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:47.870][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:47.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:47.878][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.880][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.881][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.882][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".
sched.DEBUG[2025-08-15 19:28:47.887][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 [2025-08-15 19:28:47.890][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:47.904][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-08-15 19:28:47.905][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-15 19:28:47.908][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:47.909][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:47.910][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:47.917][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.919][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.920][FUN] Functions in observer BiodbConfig: [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 [2025-08-15 19:28:47.928][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-08-15 19:28:47.930][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-08-15 19:28:47.931][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-15 19:28:47.932][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:47.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:47.935][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:47.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:47.937][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-15 19:28:47.944][biodb::testContext]
biodb.INFO [2025-08-15 19:28:47.946][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-15 19:28:47.947][biodb::testContext] Test context - Test web services
biodb.INFO [2025-08-15 19:28:47.949][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-15 19:28:47.950][biodb::testContext]
biodb.INFO [2025-08-15 19:28:47.953][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-15 19:28:47.955][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-08-15 19:28:47.960][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-15 19:28:47.961][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-15 19:28:47.963][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-15 19:28:47.964][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.968][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-15 19:28:47.970][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-15 19:28:47.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.973][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[2025-08-15 19:28:47.975][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-15 19:28:47.976][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-15 19:28:47.978][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.981][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-15 19:28:47.982][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-15 19:28:47.983][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-15 19:28:47.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.987][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-15 19:28:47.989][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-15 19:28:47.990][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-15 19:28:47.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:47.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:47.995][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-15 19:28:47.997][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-15 19:28:47.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:47.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.001][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-15 19:28:48.002][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-15 19:28:48.004][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-15 19:28:48.005][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.009][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-15 19:28:48.009][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-15 19:28:48.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.012][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[2025-08-15 19:28:48.013][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-15 19:28:48.015][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-15 19:28:48.016][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-15 19:28:48.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.021][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-15 19:28:48.022][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-15 19:28:48.023][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-15 19:28:48.024][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-15 19:28:48.026][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-15 19:28:48.027][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-15 19:28:48.028][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.030][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.DEBUG[2025-08-15 19:28:48.031][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-15 19:28:48.032][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-15 19:28:48.033][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.036][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-15 19:28:48.037][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-15 19:28:48.037][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.039][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.041][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-15 19:28:48.042][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-15 19:28:48.043][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.047][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-15 19:28:48.048][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-15 19:28:48.049][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-15 19:28:48.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.052][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-15 19:28:48.053][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-15 19:28:48.076][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-15 19:28:48.078][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.082][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-15 19:28:48.084][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-15 19:28:48.085][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-15 19:28:48.087][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.090][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-15 19:28:48.092][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:48.094][self$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[2025-08-15 19:28:48.096][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.097][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-15 19:28:48.098][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.099][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-15 19:28:48.100][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:48.101][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-15 19:28:48.103][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-15 19:28:48.104][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-15 19:28:48.105][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.107][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-15 19:28:48.108][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-15 19:28:48.109][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:48.111][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.112][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-15 19:28:48.112][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-15 19:28:48.112][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-15 19:28:48.112][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-15 19:28:48.112][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-15 19:28:48.113][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-15 19:28:48.115][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:48.116][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:48.117][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-15 19:28:48.119][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:48.120][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:48.121][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-15 19:28:48.122][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:48.124][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-15 19:28:48.125][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-15 19:28:48.127][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:48.128][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:48.129][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-15 19:28:48.132][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:48.134][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-15 19:28:48.135][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.136][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-15 19:28:48.138][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.139][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-15 19:28:48.140][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:48.141][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-15 19:28:48.142][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-15 19:28:48.143][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-15 19:28:48.144][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.146][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-15 19:28:48.147][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-15 19:28:48.148][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:48.149][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.150][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-15 19:28:48.150][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-15 19:28:48.150][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-15 19:28:48.150][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-15 19:28:48.150][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-15 19:28:48.152][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-15 19:28:48.153][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:48.154][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:48.156][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-15 19:28:48.157][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:48.158][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:48.159][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-15 19:28:48.161][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:48.162][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-15 19:28:48.163][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-15 19:28:48.164][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:48.166][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:48.167][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-15 19:28:48.169][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.171][self$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[2025-08-15 19:28:48.172][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.173][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-15 19:28:48.175][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.176][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-15 19:28:48.177][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:48.179][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-15 19:28:48.180][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-15 19:28:48.181][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-15 19:28:48.182][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:48.184][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-15 19:28:48.185][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-15 19:28:48.186][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:48.188][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.189][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:48.190][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-15 19:28:48.191][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:48.192][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:48.193][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-15 19:28:48.194][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:48.195][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:48.196][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-15 19:28:48.197][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:48.198][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-15 19:28:48.199][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-15 19:28:48.200][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:48.201][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:48.203][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-15 19:28:48.205][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.206][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-15 19:28:48.207][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.208][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-15 19:28:48.209][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.210][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-15 19:28:48.211][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:48.213][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-15 19:28:48.214][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-15 19:28:48.215][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-15 19:28:48.216][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:48.217][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-15 19:28:48.219][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-15 19:28:48.220][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:48.221][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.222][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:48.223][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-15 19:28:48.225][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:48.226][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:48.227][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-15 19:28:48.228][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:48.229][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:48.230][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-15 19:28:48.231][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:48.232][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-15 19:28:48.233][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-15 19:28:48.235][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:48.236][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:48.237][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-15 19:28:48.239][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.241][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.258][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.264][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.268][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.279][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.291][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.305][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.314][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.317][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.329][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.335][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.340][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-15 19:28:48.343][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-15 19:28:48.345][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-15 19:28:48.347][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-15 19:28:48.349][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-15 19:28:48.351][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-15 19:28:48.353][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-15 19:28:48.354][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-15 19:28:48.356][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-15 19:28:48.358][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-15 19:28:48.359][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-15 19:28:48.361][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-15 19:28:48.362][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-15 19:28:48.364][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-15 19:28:48.366][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-15 19:28:48.367][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-15 19:28:48.369][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-15 19:28:48.370][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-15 19:28:48.372][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-15 19:28:48.373][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-15 19:28:48.375][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-15 19:28:48.377][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-15 19:28:48.379][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-15 19:28:48.381][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-15 19:28:48.383][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-15 19:28:48.385][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-15 19:28:48.386][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-15 19:28:48.388][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-15 19:28:48.390][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-15 19:28:48.392][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-15 19:28:48.393][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-15 19:28:48.395][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-15 19:28:48.397][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-15 19:28:48.398][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-15 19:28:48.400][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-15 19:28:48.402][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-15 19:28:48.404][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-15 19:28:48.405][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-15 19:28:48.406][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-15 19:28:48.408][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-15 19:28:48.410][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-15 19:28:48.412][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-15 19:28:48.413][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-15 19:28:48.414][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-15 19:28:48.416][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-15 19:28:48.417][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-15 19:28:48.418][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-15 19:28:48.420][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-15 19:28:48.422][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-15 19:28:48.423][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-15 19:28:48.425][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-15 19:28:48.427][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-15 19:28:48.429][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-15 19:28:48.430][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-15 19:28:48.432][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-15 19:28:48.434][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-15 19:28:48.436][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-15 19:28:48.438][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-15 19:28:48.439][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-15 19:28:48.441][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-15 19:28:48.442][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-15 19:28:48.444][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-15 19:28:48.446][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-15 19:28:48.448][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-15 19:28:48.450][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-15 19:28:48.451][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-15 19:28:48.453][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-15 19:28:48.455][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-15 19:28:48.457][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-15 19:28:48.458][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-15 19:28:48.460][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-15 19:28:48.462][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-15 19:28:48.464][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-15 19:28:48.465][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-15 19:28:48.467][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-15 19:28:48.469][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-15 19:28:48.471][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-15 19:28:48.472][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-15 19:28:48.474][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-15 19:28:48.475][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-15 19:28:48.477][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-15 19:28:48.479][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-15 19:28:48.480][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-15 19:28:48.482][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-15 19:28:48.484][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-08-15 19:28:48.485][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-15 19:28:48.486][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.489][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.491][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:48.493][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:48.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:48.501][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:48.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:48.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:48.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.515][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:48.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:48.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:48.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:48.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.530][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:48.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:48.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.536][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[2025-08-15 19:28:48.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:48.538][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:48.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.543][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[2025-08-15 19:28:48.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:48.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:48.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.550][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[2025-08-15 19:28:48.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:48.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:48.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:48.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:48.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.567][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:48.570][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:48.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:48.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:48.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:48.587][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:48.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:48.594][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:48.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.598][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[2025-08-15 19:28:48.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:48.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:48.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.605][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[2025-08-15 19:28:48.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:48.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:48.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.612][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[2025-08-15 19:28:48.614][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-08-15 19:28:48.616][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-08-15 19:28:48.619][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:48.620][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-15 19:28:48.621][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.622][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-15 19:28:48.624][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.625][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-15 19:28:48.626][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.628][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-15 19:28:48.629][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-15 19:28:48.631][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-15 19:28:48.632][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.633][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-08-15 19:28:48.634][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-15 19:28:48.635][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-15 19:28:48.635][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-08-15 19:28:48.635][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-15 19:28:48.635][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-15 19:28:48.635][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-15 19:28:48.635][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-08-15 19:28:48.635][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-15 19:28:48.635][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-15 19:28:48.635][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-08-15 19:28:48.635][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-15 19:28:48.635][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-15 19:28:48.637][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:48.638][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-15 19:28:48.638][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-15 19:28:48.638][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-15 19:28:48.639][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-15 19:28:48.640][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:48.641][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:48.642][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-15 19:28:48.643][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:48.645][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:48.645][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-15 19:28:48.647][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-15 19:28:48.647][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-15 19:28:48.648][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-15 19:28:48.649][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-15 19:28:48.650][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.652][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-15 19:28:48.652][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-15 19:28:48.654][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-15 19:28:48.665][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-15 19:28:48.668][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-08-15 19:28:48.669][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-15 19:28:48.671][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-15 19:28:48.674][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-15 19:28:48.678][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-08-15 19:28:48.685][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-08-15 19:28:48.687][biodb::testThat]
biodb.INFO [2025-08-15 19:28:48.689][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-08-15 19:28:48.690][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-15 19:28:48.691][biodb::testThat]
sched.DEBUG[2025-08-15 19:28:48.695][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-08-15 19:28:48.697][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:48.703][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-08-15 19:28:48.705][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-15 19:28:48.709][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-08-15 19:28:48.713][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:48.715][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-08-15 19:28:48.717][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-08-15 19:28:48.728][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-08-15 19:28:48.729][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-08-15 19:28:48.731][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-15 19:28:48.732][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:48.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:48.734][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:48.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:48.736][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-15 19:28:48.742][biodb::testContext]
biodb.INFO [2025-08-15 19:28:48.743][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-15 19:28:48.745][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-08-15 19:28:48.746][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-15 19:28:48.748][biodb::testContext]
biodb.INFO [2025-08-15 19:28:48.750][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-15 19:28:48.753][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-08-15 19:28:48.758][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-15 19:28:48.760][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-15 19:28:48.761][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-15 19:28:48.763][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.766][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-15 19:28:48.767][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-15 19:28:48.768][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.772][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-15 19:28:48.773][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-15 19:28:48.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.777][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-15 19:28:48.778][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-15 19:28:48.779][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-15 19:28:48.780][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.783][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-15 19:28:48.784][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-15 19:28:48.785][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-15 19:28:48.786][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.788][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[2025-08-15 19:28:48.789][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-15 19:28:48.791][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-15 19:28:48.792][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.795][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-15 19:28:48.796][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-15 19:28:48.797][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-15 19:28:48.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.800][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[2025-08-15 19:28:48.801][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-15 19:28:48.803][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-15 19:28:48.804][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.806][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-15 19:28:48.808][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-15 19:28:48.809][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-15 19:28:48.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.813][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-15 19:28:48.814][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-15 19:28:48.815][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-15 19:28:48.816][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-15 19:28:48.817][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-15 19:28:48.818][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-15 19:28:48.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.822][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-15 19:28:48.823][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-15 19:28:48.824][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.827][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-15 19:28:48.829][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-15 19:28:48.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.833][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-15 19:28:48.835][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-15 19:28:48.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.839][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-15 19:28:48.841][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-15 19:28:48.842][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-15 19:28:48.843][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.847][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-15 19:28:48.848][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-15 19:28:48.881][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-15 19:28:48.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.886][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[2025-08-15 19:28:48.887][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-15 19:28:48.888][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-15 19:28:48.890][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-15 19:28:48.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:48.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:48.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:48.895][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-15 19:28:48.898][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:48.899][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-15 19:28:48.900][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.902][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-15 19:28:48.903][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.904][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-15 19:28:48.905][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:48.907][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-15 19:28:48.908][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-15 19:28:48.909][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-15 19:28:48.911][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.912][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-15 19:28:48.913][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-15 19:28:48.914][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:48.915][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.916][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-15 19:28:48.916][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-15 19:28:48.916][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-15 19:28:48.916][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-15 19:28:48.916][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-15 19:28:48.917][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-15 19:28:48.919][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:48.920][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:48.921][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-15 19:28:48.923][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:48.924][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:48.925][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-15 19:28:48.926][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:48.928][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-15 19:28:48.928][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-15 19:28:48.930][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:48.931][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:48.933][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-15 19:28:48.935][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:48.936][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-15 19:28:48.937][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.938][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-15 19:28:48.939][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.940][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-15 19:28:48.942][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:48.943][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-15 19:28:48.944][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-15 19:28:48.946][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-15 19:28:48.947][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.948][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-15 19:28:48.949][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-15 19:28:48.950][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:48.952][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.953][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-15 19:28:48.953][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-15 19:28:48.953][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-15 19:28:48.953][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-15 19:28:48.953][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-15 19:28:48.954][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-15 19:28:48.956][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:48.957][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:48.958][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-15 19:28:48.960][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:48.961][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:48.962][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-15 19:28:48.964][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:48.965][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-15 19:28:48.966][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-15 19:28:48.967][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:48.969][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:48.970][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-15 19:28:48.973][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.974][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-15 19:28:48.975][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.977][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-15 19:28:48.978][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.980][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-15 19:28:48.981][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:48.982][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-15 19:28:48.984][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-15 19:28:48.985][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-15 19:28:48.986][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:48.987][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-15 19:28:48.988][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-15 19:28:48.989][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:48.990][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:48.992][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:48.993][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-15 19:28:48.994][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:48.995][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:48.996][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-15 19:28:48.998][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:48.999][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:49.000][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-15 19:28:49.001][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:49.003][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-15 19:28:49.004][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-15 19:28:49.005][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:49.007][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:49.008][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-15 19:28:49.011][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:49.012][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-15 19:28:49.014][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:49.015][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-15 19:28:49.016][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:49.017][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-15 19:28:49.019][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:49.020][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-15 19:28:49.021][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-15 19:28:49.023][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-15 19:28:49.024][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:49.025][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-15 19:28:49.027][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-15 19:28:49.028][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:49.029][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:49.031][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:49.032][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-15 19:28:49.033][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:49.034][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:49.035][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-15 19:28:49.036][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:49.038][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:49.039][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-15 19:28:49.040][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:49.042][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-15 19:28:49.043][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-15 19:28:49.044][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:49.046][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-15 19:28:49.047][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-15 19:28:49.049][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.051][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.061][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.DEBUG[2025-08-15 19:28:49.063][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.069][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.094][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.105][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.111][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.116][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.122][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.127][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.133][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.139][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.144][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.150][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-15 19:28:49.152][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-15 19:28:49.154][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-15 19:28:49.156][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-15 19:28:49.158][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-15 19:28:49.159][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-15 19:28:49.161][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-15 19:28:49.163][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-15 19:28:49.164][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-15 19:28:49.166][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-15 19:28:49.168][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-15 19:28:49.169][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-15 19:28:49.171][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-15 19:28:49.172][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-15 19:28:49.175][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-15 19:28:49.176][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-15 19:28:49.177][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-15 19:28:49.179][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-15 19:28:49.180][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-15 19:28:49.182][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-15 19:28:49.184][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-15 19:28:49.186][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-15 19:28:49.187][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-15 19:28:49.189][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-15 19:28:49.190][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-15 19:28:49.192][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-15 19:28:49.193][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-15 19:28:49.195][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-15 19:28:49.196][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-15 19:28:49.197][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-15 19:28:49.199][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-15 19:28:49.201][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-15 19:28:49.202][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-15 19:28:49.203][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-15 19:28:49.205][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-15 19:28:49.206][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-15 19:28:49.208][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-15 19:28:49.210][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-15 19:28:49.211][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-15 19:28:49.213][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-15 19:28:49.215][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-15 19:28:49.217][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-15 19:28:49.218][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-15 19:28:49.220][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-15 19:28:49.222][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-15 19:28:49.223][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-15 19:28:49.225][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-15 19:28:49.227][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-15 19:28:49.229][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-15 19:28:49.231][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-15 19:28:49.233][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-15 19:28:49.235][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-15 19:28:49.236][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-15 19:28:49.238][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-15 19:28:49.240][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-15 19:28:49.242][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-15 19:28:49.244][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-15 19:28:49.246][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-15 19:28:49.247][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-15 19:28:49.249][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-15 19:28:49.250][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-15 19:28:49.252][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-15 19:28:49.254][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-15 19:28:49.255][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-15 19:28:49.257][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-15 19:28:49.258][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-15 19:28:49.260][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-15 19:28:49.262][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-15 19:28:49.263][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-15 19:28:49.265][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-15 19:28:49.267][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-15 19:28:49.268][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-15 19:28:49.270][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-15 19:28:49.272][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-15 19:28:49.274][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-15 19:28:49.276][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-15 19:28:49.277][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-15 19:28:49.279][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-15 19:28:49.281][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-15 19:28:49.283][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-15 19:28:49.285][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-15 19:28:49.287][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-15 19:28:49.289][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-15 19:28:49.291][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-15 19:28:49.293][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-08-15 19:28:49.295][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-15 19:28:49.296][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.298][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.301][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:49.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:49.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.309][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:49.312][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:49.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.314][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.318][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:49.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:49.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.322][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:49.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:49.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:49.337][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:49.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.343][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:49.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:49.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.350][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.DEBUG[2025-08-15 19:28:49.351][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:49.354][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:49.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.360][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:49.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:49.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.367][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[2025-08-15 19:28:49.368][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:49.370][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:49.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:49.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:49.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:49.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:49.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:49.396][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:49.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:49.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:49.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.410][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:49.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:49.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.418][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:49.420][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:49.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.423][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.426][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-15 19:28:49.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:49.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:49.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-15 19:28:49.435][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-08-15 19:28:49.437][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-08-15 19:28:49.440][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:49.441][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-15 19:28:49.442][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:49.451][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-15 19:28:49.453][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:49.454][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-15 19:28:49.455][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:49.457][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-15 19:28:49.458][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-15 19:28:49.459][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-15 19:28:49.460][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:49.461][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-08-15 19:28:49.462][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-15 19:28:49.464][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-15 19:28:49.464][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-08-15 19:28:49.464][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-15 19:28:49.464][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-15 19:28:49.464][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-15 19:28:49.464][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-08-15 19:28:49.464][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-15 19:28:49.464][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-15 19:28:49.464][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-08-15 19:28:49.464][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-15 19:28:49.464][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-15 19:28:49.465][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-15 19:28:49.466][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-15 19:28:49.466][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-15 19:28:49.466][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-15 19:28:49.467][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-15 19:28:49.468][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:49.470][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:49.471][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-15 19:28:49.472][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-15 19:28:49.473][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-15 19:28:49.475][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-15 19:28:49.476][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-15 19:28:49.476][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-15 19:28:49.477][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-15 19:28:49.478][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-15 19:28:49.479][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-15 19:28:49.481][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-15 19:28:49.481][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-15 19:28:49.482][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-15 19:28:49.485][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-15 19:28:49.487][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-08-15 19:28:49.489][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-15 19:28:49.491][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-15 19:28:49.493][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-15 19:28:49.498][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-08-15 19:28:49.506][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-08-15 19:28:49.507][biodb::testThat]
biodb.INFO [2025-08-15 19:28:49.509][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-08-15 19:28:49.510][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-15 19:28:49.512][biodb::testThat]
sched.DEBUG[2025-08-15 19:28:49.515][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-08-15 19:28:49.518][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:49.523][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-08-15 19:28:49.525][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-15 19:28:49.530][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 [2025-08-15 19:28:49.533][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-15 19:28:49.536][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-08-15 19:28:49.537][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-15 19:28:49.543][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-08-15 19:28:49.551][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-15 19:28:49.554][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-15 19:28:49.563][FUN] Found encoding UTF-8 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-08-15 19:28:49.565][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-15 19:28:49.566][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-15 19:28:49.568][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-15 19:28:49.570][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-15 19:28:49.571][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:49.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:49.580][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-15 19:28:49.588][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:49.590][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:49.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.592][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:49.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:49.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.600][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:49.601][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:49.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.605][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.607][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-15 19:28:49.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-15 19:28:49.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.612][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:49.614][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:49.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.616][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.618][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-15 19:28:49.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-15 19:28:49.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.623][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-15 19:28:49.624][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-15 19:28:49.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.627][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.629][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-15 19:28:49.630][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-15 19:28:49.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.632][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.634][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:49.636][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:49.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.638][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.640][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:49.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-15 19:28:49.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.645][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:49.646][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:49.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.648][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.650][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-15 19:28:49.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-15 19:28:49.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.655][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:49.656][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:49.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.659][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.660][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:49.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-15 19:28:49.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.666][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:49.667][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:49.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.670][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.672][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-15 19:28:49.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-15 19:28:49.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.678][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:49.679][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:49.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.681][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.683][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-15 19:28:49.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-15 19:28:49.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.688][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:49.690][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:49.691][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.692][ef$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.693][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-15 19:28:49.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-15 19:28:49.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.698][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:49.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:49.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:49.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:49.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:49.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:49.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.714][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-15 19:28:49.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-15 19:28:49.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:49.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:49.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:49.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:49.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:49.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:49.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:49.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:49.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:49.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:49.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-15 19:28:49.741][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-15 19:28:49.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-15 19:28:49.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-15 19:28:49.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-15 19:28:49.747][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-08-15 19:28:49.752][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-08-15 19:28:49.754][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-08-15 19:28:49.756][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-15 19:28:49.757][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-15 19:28:49.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-15 19:28:49.759][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-15 19:28:49.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-15 19:28:49.762][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-15 19:28:49.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 357 ]
> 
> proc.time()
   user  system elapsed 
 18.969   1.103  28.530

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn2.6361.1783.923
ChebiEntry0.3520.0240.397