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This page was generated on 2025-11-01 12:04 -0400 (Sat, 01 Nov 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4901
lconwaymacOS 12.7.6 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4691
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4637
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 210/2361HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.16.0  (landing page)
Pierrick Roger
Snapshot Date: 2025-10-31 13:45 -0400 (Fri, 31 Oct 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: RELEASE_3_22
git_last_commit: 28c1b2d
git_last_commit_date: 2025-10-29 11:12:25 -0400 (Wed, 29 Oct 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.6 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published

CHECK results for biodbChebi on kjohnson3

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

raw results


Summary

Package: biodbChebi
Version: 1.16.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.16.0.tar.gz
StartedAt: 2025-10-31 18:46:12 -0400 (Fri, 31 Oct 2025)
EndedAt: 2025-10-31 18:46:40 -0400 (Fri, 31 Oct 2025)
EllapsedTime: 28.4 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.16.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/biodbChebi.Rcheck’
* using R version 4.5.1 Patched (2025-09-10 r88807)
* using platform: aarch64-apple-darwin20
* R was compiled by
    Apple clang version 16.0.0 (clang-1600.0.26.6)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Ventura 13.7.7
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.16.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK

Installation output

biodbChebi.Rcheck/00install.out

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


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

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


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

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-10-31 18:46:31.954][biodb::testContext]
biodb.INFO [2025-10-31 18:46:31.956][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-31 18:46:31.956][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-10-31 18:46:31.956][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-31 18:46:31.957][biodb::testContext]
biodb.INFO [2025-10-31 18:46:31.959][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-10-31 18:46:31.960][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-31 18:46:31.963][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-31 18:46:31.963][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-31 18:46:31.963][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-31 18:46:31.964][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:31.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:31.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:31.964][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-31 18:46:31.970][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-31 18:46:31.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:31.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:31.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:31.971][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-31 18:46:31.972][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-31 18:46:31.979][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:31.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:31.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:31.980][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-31 18:46:31.980][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-31 18:46:31.980][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-31 18:46:31.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:31.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:31.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:31.981][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-31 18:46:31.981][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-31 18:46:31.982][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-31 18:46:31.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:31.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:31.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:31.983][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-31 18:46:31.983][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-31 18:46:31.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:31.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:31.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:31.984][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-31 18:46:31.984][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-31 18:46:31.984][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-31 18:46:31.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:31.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:31.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:31.985][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-31 18:46:31.986][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-31 18:46:31.986][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:31.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:31.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:31.987][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-31 18:46:31.991][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-31 18:46:31.991][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-31 18:46:31.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:31.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:31.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:31.992][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-31 18:46:31.993][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-31 18:46:31.993][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-31 18:46:31.993][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-31 18:46:31.993][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-31 18:46:31.994][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-31 18:46:31.994][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:31.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:31.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:31.995][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-31 18:46:31.995][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-31 18:46:31.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:31.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:31.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:31.996][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-31 18:46:31.996][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-31 18:46:31.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:31.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:31.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:31.997][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-31 18:46:31.997][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-31 18:46:31.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:31.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:31.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:31.998][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-31 18:46:31.999][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-31 18:46:31.999][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-31 18:46:31.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:31.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.000][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-31 18:46:32.000][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-31 18:46:32.006][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-31 18:46:32.006][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.007][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-31 18:46:32.007][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-31 18:46:32.007][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-31 18:46:32.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.010][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-31 18:46:32.020][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:32.025][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-31 18:46:32.025][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:32.026][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 18:46:32.026][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:32.026][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 18:46:32.027][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:32.027][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 18:46:32.027][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-31 18:46:32.027][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 18:46:32.028][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:32.028][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-31 18:46:32.028][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 18:46:32.028][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:32.029][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:32.029][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-31 18:46:32.029][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-31 18:46:32.029][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-31 18:46:32.029][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-31 18:46:32.029][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-31 18:46:32.029][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 18:46:32.030][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:32.030][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:32.030][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 18:46:32.030][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:32.030][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:32.031][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 18:46:32.031][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:32.031][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 18:46:32.031][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 18:46:32.032][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:32.032][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:32.032][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-31 18:46:32.033][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:32.033][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-31 18:46:32.033][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:32.034][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 18:46:32.034][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:32.034][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 18:46:32.034][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:32.035][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 18:46:32.035][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-31 18:46:32.035][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 18:46:32.035][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:32.036][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-31 18:46:32.036][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 18:46:32.036][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:32.036][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:32.037][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-31 18:46:32.037][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-31 18:46:32.037][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-31 18:46:32.037][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-31 18:46:32.037][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-31 18:46:32.037][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 18:46:32.037][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:32.038][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:32.038][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 18:46:32.038][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:32.038][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:32.038][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 18:46:32.039][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:32.039][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 18:46:32.039][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 18:46:32.039][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:32.040][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:32.040][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-31 18:46:32.041][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:32.041][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-31 18:46:32.041][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:32.041][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 18:46:32.042][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:32.042][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 18:46:32.042][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:32.042][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 18:46:32.043][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-31 18:46:32.043][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 18:46:32.043][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:32.043][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-31 18:46:32.044][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 18:46:32.046][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:32.047][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:32.047][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:32.047][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 18:46:32.047][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:32.048][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:32.048][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 18:46:32.048][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:32.048][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:32.049][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 18:46:32.049][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:32.049][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 18:46:32.049][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 18:46:32.050][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:32.050][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:32.050][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-31 18:46:32.051][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:32.051][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-31 18:46:32.051][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:32.052][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 18:46:32.052][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:32.052][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 18:46:32.052][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:32.053][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 18:46:32.053][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-31 18:46:32.053][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 18:46:32.053][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:32.054][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-31 18:46:32.054][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 18:46:32.054][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:32.054][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:32.055][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:32.055][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 18:46:32.055][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:32.055][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:32.056][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 18:46:32.056][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:32.056][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:32.056][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 18:46:32.057][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:32.057][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 18:46:32.057][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 18:46:32.057][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:32.058][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:32.059][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-31 18:46:32.059][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.060][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.061][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[2025-10-31 18:46:32.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.062][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.064][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.065][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.066][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.067][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.068][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.069][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.070][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.071][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.072][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.073][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[2025-10-31 18:46:32.074][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.076][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.077][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.078][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-31 18:46:32.080][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-31 18:46:32.080][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-31 18:46:32.081][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-31 18:46:32.081][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-31 18:46:32.082][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-31 18:46:32.082][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-31 18:46:32.082][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-31 18:46:32.083][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-31 18:46:32.083][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-31 18:46:32.083][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-31 18:46:32.084][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-31 18:46:32.084][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-31 18:46:32.085][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-31 18:46:32.085][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-31 18:46:32.085][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-31 18:46:32.086][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-31 18:46:32.086][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-31 18:46:32.086][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-31 18:46:32.087][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-31 18:46:32.087][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-31 18:46:32.088][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-31 18:46:32.088][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-31 18:46:32.088][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-31 18:46:32.089][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-31 18:46:32.089][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-31 18:46:32.089][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-31 18:46:32.090][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-31 18:46:32.090][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-31 18:46:32.091][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-31 18:46:32.091][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-31 18:46:32.091][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-31 18:46:32.092][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-31 18:46:32.095][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-31 18:46:32.096][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-31 18:46:32.096][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-31 18:46:32.096][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-31 18:46:32.097][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-31 18:46:32.097][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-31 18:46:32.098][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-31 18:46:32.098][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-31 18:46:32.099][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-31 18:46:32.099][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-31 18:46:32.100][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-31 18:46:32.100][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-31 18:46:32.101][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-31 18:46:32.101][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-31 18:46:32.101][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-31 18:46:32.102][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-31 18:46:32.102][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-31 18:46:32.102][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-31 18:46:32.103][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-31 18:46:32.103][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-31 18:46:32.104][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-31 18:46:32.104][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-31 18:46:32.104][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-31 18:46:32.105][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-31 18:46:32.105][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-31 18:46:32.106][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-31 18:46:32.106][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-31 18:46:32.106][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-31 18:46:32.107][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-31 18:46:32.107][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-31 18:46:32.107][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-31 18:46:32.108][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-31 18:46:32.108][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-31 18:46:32.109][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-31 18:46:32.109][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-31 18:46:32.109][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-31 18:46:32.110][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-31 18:46:32.110][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-31 18:46:32.110][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-31 18:46:32.111][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-31 18:46:32.111][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-31 18:46:32.112][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-31 18:46:32.112][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-31 18:46:32.112][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-31 18:46:32.113][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-31 18:46:32.113][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-31 18:46:32.113][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-31 18:46:32.114][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-31 18:46:32.114][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-31 18:46:32.115][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-31 18:46:32.116][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-31 18:46:32.117][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-10-31 18:46:32.118][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-31 18:46:32.119][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.119][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.121][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:32.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:32.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:32.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:32.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.124][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:32.125][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:32.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.126][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[2025-10-31 18:46:32.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:32.126][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:32.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.128][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:32.128][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:32.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.129][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:32.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:32.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.131][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[2025-10-31 18:46:32.131][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:32.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:32.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.132][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:32.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:32.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.134][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:32.134][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:32.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.136][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[2025-10-31 18:46:32.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:32.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:32.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:32.139][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:32.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:32.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:32.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:32.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:32.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.146][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:32.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:32.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.148][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:32.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:32.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.149][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[2025-10-31 18:46:32.149][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:32.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:32.150][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:32.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:32.151][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-31 18:46:32.155][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-31 18:46:32.155][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:32.156][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-31 18:46:32.156][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:32.156][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 18:46:32.157][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:32.157][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 18:46:32.157][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:32.157][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-31 18:46:32.158][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-31 18:46:32.158][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 18:46:32.158][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:32.158][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-31 18:46:32.159][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 18:46:32.159][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-31 18:46:32.159][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-31 18:46:32.159][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-31 18:46:32.159][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-31 18:46:32.159][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-31 18:46:32.159][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-31 18:46:32.159][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-31 18:46:32.159][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-31 18:46:32.159][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-31 18:46:32.159][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-31 18:46:32.159][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-31 18:46:32.159][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:32.160][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-31 18:46:32.160][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-31 18:46:32.160][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-31 18:46:32.160][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-31 18:46:32.160][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:32.160][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:32.161][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 18:46:32.161][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:32.161][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:32.161][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 18:46:32.162][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-31 18:46:32.162][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-31 18:46:32.162][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 18:46:32.162][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 18:46:32.162][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:32.163][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-31 18:46:32.163][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-31 18:46:32.165][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-31 18:46:32.165][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-31 18:46:32.166][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-31 18:46:32.166][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-31 18:46:32.166][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-31 18:46:32.167][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-31 18:46:32.177][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-31 18:46:32.184][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-31 18:46:32.187][biodb::testThat]
biodb.INFO [2025-10-31 18:46:32.188][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-10-31 18:46:32.188][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 18:46:32.188][biodb::testThat]
biodb.TRACE[2025-10-31 18:46:32.190][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-10-31 18:46:32.191][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 18:46:32.192][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 18:46:32.196][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:32.196][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:32.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:32.201][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.202][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:32.206][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.206][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.207][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.218][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:32.218][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:32.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.219][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.227][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:32.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:32.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.228][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:32.229][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:32.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.229][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.230][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:32.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:32.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.231][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:32.231][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:32.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.231][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.232][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:32.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:32.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.233][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.233][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.234][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.234][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.235][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:32.236][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:32.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.236][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.236][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:32.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:32.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.237][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:32.238][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.238][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.239][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:32.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.240][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:32.240][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:32.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.240][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.241][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:32.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:32.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.242][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:32.242][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:32.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.243][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.243][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:32.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:32.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.244][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:32.244][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:32.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.245][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.245][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:32.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:32.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.246][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:32.247][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:32.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.247][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.247][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:32.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:32.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.248][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.252][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:32.271][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-10-31 18:46:32.272][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:32.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:32.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.273][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:32.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:32.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.282][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.283][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.284][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.285][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.286][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-31 18:46:32.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-31 18:46:32.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.287][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-31 18:46:32.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-31 18:46:32.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.288][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-31 18:46:32.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-31 18:46:32.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.310][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-31 18:46:32.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-31 18:46:32.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.318][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.320][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.328][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.330][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.339][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.339][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.339][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.340][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.344][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.345][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.346][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.347][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.347][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.348][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.352][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:32.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:32.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.356][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:32.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:32.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.357][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:32.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:32.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.358][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:32.359][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:32.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.359][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.359][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:32.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:32.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.363][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:32.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:32.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.365][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:32.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:32.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.368][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:32.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:32.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.369][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:32.369][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:32.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.370][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.370][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:32.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:32.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.374][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.375][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.376][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.377][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.377][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.378][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.378][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.381][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:32.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:32.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:32.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:32.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:32.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:32.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.385][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:32.385][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:32.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.385][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:32.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:32.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.389][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:32.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:32.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.392][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:32.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:32.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.393][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:32.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:32.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.394][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:32.395][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:32.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.395][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.396][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:32.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:32.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.399][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-31 18:46:32.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:32.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.403][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-31 18:46:32.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:32.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.404][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-31 18:46:32.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:32.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.405][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-31 18:46:32.405][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:32.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.406][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.406][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-31 18:46:32.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:32.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.409][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:32.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:32.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.411][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:32.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:32.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.412][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:32.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:32.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.413][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:32.413][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:32.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.414][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.414][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:32.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:32.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.418][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:32.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:32.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.420][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:32.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:32.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.421][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:32.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:32.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.422][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:32.422][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:32.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.423][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.423][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:32.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:32.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.427][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.428][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.429][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.430][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.430][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.431][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.431][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.435][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:32.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:32.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.436][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:32.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:32.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.437][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:32.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:32.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.438][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:32.439][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:32.439][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.439][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.440][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:32.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:32.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.446][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.446][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.447][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.449][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:32.449][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:32.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.450][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.451][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:32.452][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:32.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.452][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.454][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:32.454][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:32.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.455][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.456][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.456][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.457][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.458][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:32.459][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:32.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.459][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.461][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.461][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.462][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.463][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:32.464][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:32.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.464][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.466][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-31 18:46:32.466][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:32.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.467][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.468][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:32.468][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:32.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.469][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.476][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:32.477][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:32.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.477][ef$get] fields variable is a list.
biodb.INFO [2025-10-31 18:46:32.483][biodb::testThat]
biodb.INFO [2025-10-31 18:46:32.484][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-10-31 18:46:32.484][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 18:46:32.484][biodb::testThat]
biodb.DEBUG[2025-10-31 18:46:32.489][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-10-31 18:46:32.492][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 18:46:32.493][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 18:46:32.495][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-10-31 18:46:32.496][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 18:46:32.506][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 18:46:32.506][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 18:46:32.507][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:32.507][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:32.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:32.509][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:32.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:32.510][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:32.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:32.511][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.511][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.511][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.512][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.518][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:32.519][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:32.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.519][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.520][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:32.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:32.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.521][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:32.521][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:32.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.521][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.522][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:32.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:32.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.523][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:32.523][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:32.523][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.524][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.524][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:32.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:32.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.525][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.525][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.526][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.526][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.527][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:32.528][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:32.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.528][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.528][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:32.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:32.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.529][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:32.530][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.530][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.531][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:32.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.532][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:32.532][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:32.532][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.532][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.533][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:32.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:32.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.534][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:32.534][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:32.534][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.535][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.535][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:32.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:32.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.536][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:32.536][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:32.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.537][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.537][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:32.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:32.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.538][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:32.539][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:32.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.539][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.539][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:32.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:32.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.543][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.544][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.546][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:32.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.550][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:32.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:32.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:32.554][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-10-31 18:46:32.554][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-10-31 18:46:32.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-10-31 18:46:32.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.555][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-10-31 18:46:32.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-10-31 18:46:32.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.556][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-10-31 18:46:32.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-10-31 18:46:32.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-31 18:46:32.560][biodb::testThat]
biodb.INFO [2025-10-31 18:46:32.560][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-10-31 18:46:32.560][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 18:46:32.561][biodb::testThat]
biodb.TRACE[2025-10-31 18:46:32.562][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:32.562][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:32.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.563][ef$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:32.563][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-10-31 18:46:32.571][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:32.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:32.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.573][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:32.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:32.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.574][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:32.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:32.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:32.576][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-10-31 18:46:32.578][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-31 18:46:32.587][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:32.589][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-31 18:46:32.589][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-31 18:46:32.595][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:32.605][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:32.607][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-31 18:46:32.607][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 18:46:32.608][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-10-31 18:46:32.612][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:32.613][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:32.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.613][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.614][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.614][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.614][ef$get] fields variable is a list.
biodb.INFO [2025-10-31 18:46:32.616][biodb::testThat]
biodb.INFO [2025-10-31 18:46:32.616][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-10-31 18:46:32.617][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 18:46:32.617][biodb::testThat]
biodb.TRACE[2025-10-31 18:46:32.631][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:32.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:32.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.632][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:32.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:32.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.633][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:32.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:32.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-31 18:46:32.653][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:32.654][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:32.655][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-31 18:46:32.655][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-31 18:46:32.661][biodb::testThat]
biodb.INFO [2025-10-31 18:46:32.662][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-10-31 18:46:32.662][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 18:46:32.662][biodb::testThat]
biodb.TRACE[2025-10-31 18:46:32.669][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:32.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:32.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.670][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:32.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:32.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.674][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.675][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.676][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.677][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.678][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-31 18:46:32.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-31 18:46:32.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.679][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-31 18:46:32.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-31 18:46:32.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.680][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-31 18:46:32.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-31 18:46:32.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.683][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-31 18:46:32.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-31 18:46:32.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.690][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:32.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:32.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.691][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:32.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:32.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.692][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.693][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:32.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.695][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.696][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:32.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.697][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-31 18:46:32.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-31 18:46:32.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.698][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-31 18:46:32.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-31 18:46:32.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.699][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-31 18:46:32.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-31 18:46:32.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:32.700][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-31 18:46:32.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-31 18:46:32.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:32.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-31 18:46:32.704][biodb::testThat]
biodb.INFO [2025-10-31 18:46:32.704][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-10-31 18:46:32.705][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 18:46:32.705][biodb::testThat]
biodb.INFO [2025-10-31 18:46:32.708][biodb::testThat]
biodb.INFO [2025-10-31 18:46:32.708][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-10-31 18:46:32.708][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 18:46:32.709][biodb::testThat]
biodb.INFO [2025-10-31 18:46:32.711][biodb::testThat]
biodb.INFO [2025-10-31 18:46:32.711][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-10-31 18:46:32.712][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 18:46:32.712][biodb::testThat]
biodb.DEBUG[2025-10-31 18:46:32.713][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-10-31 18:46:33.386][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-10-31 18:46:33.719][biodb::testThat]
biodb.INFO [2025-10-31 18:46:33.720][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-10-31 18:46:33.720][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 18:46:33.720][biodb::testThat]
biodb.TRACE[2025-10-31 18:46:33.722][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:33.723][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:33.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.723][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.723][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:33.724][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:33.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.724][ef$get] fields variable is a list.
biodb.INFO [2025-10-31 18:46:33.725][biodb::testThat]
biodb.INFO [2025-10-31 18:46:33.725][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-10-31 18:46:33.725][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 18:46:33.726][biodb::testThat]
biodb.TRACE[2025-10-31 18:46:33.729][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:33.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:33.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.730][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:33.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:33.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.731][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:33.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:33.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-31 18:46:33.768][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:33.769][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:33.770][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-31 18:46:33.771][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-31 18:46:33.799][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:33.800][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:33.802][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-31 18:46:33.802][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-31 18:46:33.807][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-31 18:46:33.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-31 18:46:33.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.810][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.812][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.813][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.814][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-31 18:46:33.818][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:33.819][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:33.820][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-31 18:46:33.820][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 18:46:33.822][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:33.822][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:33.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:33.824][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:33.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:33.825][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:33.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:33.825][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-10-31 18:46:33.844][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 18:46:33.844][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 18:46:33.846][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-10-31 18:46:33.846][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 18:46:33.847][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 18:46:33.847][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 18:46:33.848][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:33.848][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:33.849][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:33.850][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:33.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:33.851][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:33.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:33.852][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:33.852][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:33.853][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.853][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:33.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:33.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.854][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:33.855][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:33.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.855][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.855][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:33.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:33.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.856][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:33.857][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:33.857][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.861][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.861][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:33.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:33.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.863][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:33.863][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:33.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.863][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.864][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:33.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:33.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.865][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:33.865][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:33.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.865][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.866][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:33.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:33.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.867][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:33.867][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:33.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.868][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.868][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:33.868][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.869][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.869][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:33.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.870][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:33.870][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:33.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.871][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.871][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:33.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:33.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.872][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:33.875][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:33.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.876][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.876][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:33.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:33.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.877][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:33.878][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:33.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.878][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.878][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:33.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:33.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.879][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:33.880][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:33.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.880][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.881][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:33.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:33.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:33.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:33.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:33.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:33.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:33.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:33.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.885][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:33.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:33.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:33.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:33.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:33.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:33.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.888][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:33.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:33.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:33.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:33.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:33.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:33.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.891][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:33.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:33.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:33.892][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-10-31 18:46:33.895][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.896][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.897][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-31 18:46:33.899][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:33.900][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:33.901][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-31 18:46:33.902][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 18:46:33.909][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:33.909][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:33.910][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:33.912][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:33.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:33.912][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:33.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:33.913][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.914][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:33.916][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:33.916][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:33.917][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:33.918][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:33.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:33.919][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:33.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:33.919][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-10-31 18:46:33.920][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 18:46:33.920][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 18:46:33.921][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-10-31 18:46:33.922][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 18:46:33.922][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 18:46:33.923][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 18:46:33.923][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:33.923][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:33.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:33.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:33.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:33.926][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:33.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:33.927][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:33.927][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:33.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.928][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:33.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:33.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.929][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:33.930][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:33.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.930][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.930][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:33.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:33.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.931][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:33.932][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:33.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.932][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.933][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:33.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:33.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.934][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:33.934][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:33.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.935][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.935][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:33.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:33.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.936][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:33.936][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:33.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.937][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.937][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:33.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:33.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.938][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:33.939][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:33.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.939][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.939][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:33.940][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.940][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.940][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:33.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.942][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:33.942][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:33.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.945][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:33.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:33.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.946][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:33.947][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:33.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.947][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.948][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:33.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:33.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.949][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:33.949][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:33.949][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.950][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.950][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:33.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:33.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.951][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:33.951][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:33.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.952][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.952][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:33.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:33.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:33.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:33.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:33.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:33.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:33.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:33.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:33.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:33.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.959][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:33.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:33.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:33.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:33.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:33.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:33.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:33.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:33.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:33.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:33.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:33.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:33.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:33.965][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-10-31 18:46:33.965][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.966][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.967][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-31 18:46:33.981][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:33.982][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:33.983][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-31 18:46:33.984][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 18:46:33.985][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:33.985][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:33.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:33.989][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:33.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:33.990][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:33.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:33.990][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.991][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:33.992][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:33.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:33.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:33.994][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:33.994][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:33.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:33.996][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:33.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:33.996][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:33.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:33.997][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-10-31 18:46:33.997][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 18:46:33.997][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 18:46:33.999][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-10-31 18:46:34.000][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 18:46:34.000][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 18:46:34.000][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 18:46:34.001][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.001][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.003][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.004][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:34.005][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.006][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.006][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.008][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.008][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.008][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.009][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.009][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.009][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.010][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.010][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.011][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.011][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.011][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.012][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.012][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.012][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.013][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.013][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.013][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.014][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.014][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.015][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.015][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.015][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.015][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.016][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.016][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.017][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.018][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.018][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.019][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.019][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.020][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.020][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.020][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.021][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.021][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.025][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.035][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-10-31 18:46:34.035][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.036][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.037][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.038][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.040][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.040][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.042][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.043][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:34.044][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-10-31 18:46:34.044][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 18:46:34.044][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 18:46:34.046][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-10-31 18:46:34.046][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 18:46:34.046][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 18:46:34.047][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 18:46:34.047][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.048][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.050][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.050][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:34.051][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.051][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.052][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.054][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.054][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.054][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.055][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.055][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.056][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.056][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.056][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.057][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.057][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.057][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.061][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.061][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.062][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.062][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.062][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.063][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.063][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.064][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.064][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.064][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.064][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.065][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.065][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.066][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.066][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.067][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.068][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.068][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.068][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.070][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.070][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.070][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.071][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.072][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.075][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.082][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-10-31 18:46:34.082][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.083][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.084][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.086][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.088][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.090][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.091][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.091][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.DEBUG[2025-10-31 18:46:34.091][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-10-31 18:46:34.092][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 18:46:34.092][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 18:46:34.096][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-10-31 18:46:34.096][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 18:46:34.097][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 18:46:34.097][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 18:46:34.098][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.098][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.100][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.100][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:34.101][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.102][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.102][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.104][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.104][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.105][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.105][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.105][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.106][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.106][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.106][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.107][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.107][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.107][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.108][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.108][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.109][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.109][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.109][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.110][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.110][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.110][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.111][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.111][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.112][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.112][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.112][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.113][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.114][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.114][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.115][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.115][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.116][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.116][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.117][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.117][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.118][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.120][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.121][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.130][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-10-31 18:46:34.131][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.132][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.133][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.134][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.135][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.136][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.136][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.138][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:34.140][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-10-31 18:46:34.140][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 18:46:34.140][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 18:46:34.142][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-10-31 18:46:34.143][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 18:46:34.143][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 18:46:34.143][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 18:46:34.144][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.144][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.144][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.146][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.147][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:34.148][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.148][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.148][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.150][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.150][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.151][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.151][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.152][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.152][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.153][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.153][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.154][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.155][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.155][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.156][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.157][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.157][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.157][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.158][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.159][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.159][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.160][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.160][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.161][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.161][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.162][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.171][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.173][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.173][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.174][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.174][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.175][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.175][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.176][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.176][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.176][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.178][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.178][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.178][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.179][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.180][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.180][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.181][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.181][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.182][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.183][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.185][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.190][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.191][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.193][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-10-31 18:46:34.193][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.194][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.195][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.197][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.197][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.199][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.200][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.200][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[2025-10-31 18:46:34.200][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-10-31 18:46:34.200][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 18:46:34.201][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 18:46:34.203][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-10-31 18:46:34.204][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 18:46:34.204][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 18:46:34.204][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 18:46:34.205][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.205][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.210][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.211][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.211][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.211][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.TRACE[2025-10-31 18:46:34.212][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.212][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.213][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.214][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.215][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.215][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.215][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.216][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.217][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.217][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.218][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.219][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.219][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.219][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.220][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.221][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.221][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.222][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.222][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.223][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.223][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.224][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.224][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.225][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.225][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.226][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.226][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.227][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.228][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.228][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.228][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.230][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.230][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.230][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.231][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.232][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.232][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.232][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.233][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.233][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.234][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.234][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.235][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.235][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.236][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.237][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.239][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.251][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-10-31 18:46:34.251][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.252][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.253][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.255][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.255][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.255][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.257][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.258][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:34.258][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-10-31 18:46:34.258][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 18:46:34.259][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 18:46:34.260][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-10-31 18:46:34.261][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 18:46:34.261][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 18:46:34.262][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 18:46:34.262][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.262][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.263][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.264][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.265][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:34.266][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.267][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.267][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.269][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.269][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.270][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.270][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.271][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.271][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.272][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.272][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.273][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.274][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.274][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.275][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.276][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.276][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.276][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.277][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.278][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.281][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.282][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.282][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.283][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.283][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.284][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.285][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.285][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.286][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.286][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.287][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.287][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.288][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.288][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.289][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.290][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.290][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.291][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.292][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.292][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.292][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.293][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.294][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.297][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.305][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-10-31 18:46:34.305][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.306][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.307][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.309][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.309][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.311][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.312][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.312][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:34.312][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-10-31 18:46:34.312][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 18:46:34.313][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 18:46:34.315][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-10-31 18:46:34.319][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 18:46:34.320][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 18:46:34.320][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 18:46:34.321][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.321][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.324][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.328][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.328][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[2025-10-31 18:46:34.329][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.329][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.330][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.332][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.332][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.332][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.333][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.335][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.335][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.335][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.336][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.337][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.337][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.338][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.338][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.339][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.339][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.340][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.340][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.341][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.342][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.343][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.343][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.344][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.344][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.344][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.346][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.346][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.346][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.347][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.348][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.348][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.349][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.349][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.350][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.350][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.351][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.351][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.352][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.353][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.353][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.354][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.355][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.356][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.368][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-10-31 18:46:34.369][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.370][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.371][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.372][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.372][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.374][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.375][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:34.375][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-10-31 18:46:34.375][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 18:46:34.376][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 18:46:34.378][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-10-31 18:46:34.378][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 18:46:34.378][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 18:46:34.379][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 18:46:34.379][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.380][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.382][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.382][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:34.383][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.384][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.384][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.386][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.386][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.387][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.387][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.388][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.388][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.389][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.389][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.390][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.390][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.391][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.391][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.392][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.393][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.393][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.393][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.399][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.399][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.400][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.400][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.400][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.401][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.401][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.402][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.403][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.403][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.404][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.405][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.405][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.405][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.406][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.407][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.407][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.407][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.408][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.408][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.409][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.409][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.410][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.410][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.411][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.412][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.415][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.422][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-10-31 18:46:34.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.423][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.424][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.426][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.426][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.428][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.429][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:34.430][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-10-31 18:46:34.432][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 18:46:34.433][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 18:46:34.435][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-10-31 18:46:34.435][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 18:46:34.436][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 18:46:34.436][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 18:46:34.437][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.437][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.439][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.440][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.440][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[2025-10-31 18:46:34.441][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.441][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.442][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.443][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.443][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.444][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.444][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.445][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.446][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.446][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.446][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.448][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.448][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.448][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.449][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.450][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.450][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.451][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.451][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.452][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.452][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.453][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.453][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.453][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.454][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.454][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.455][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.455][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.456][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.457][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.458][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.458][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.458][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.460][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.460][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.460][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.461][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.462][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.462][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.462][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.463][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.464][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.465][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.470][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.477][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-10-31 18:46:34.477][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.479][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.480][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.481][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.481][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.483][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:34.484][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-10-31 18:46:34.484][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 18:46:34.485][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 18:46:34.486][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-10-31 18:46:34.486][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 18:46:34.487][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 18:46:34.487][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 18:46:34.488][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.488][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.490][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.490][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:34.491][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.492][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.492][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.494][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.494][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.494][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.495][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.496][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.496][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.496][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.496][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.497][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.498][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.498][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.499][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.499][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.500][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.502][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.503][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.504][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.505][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.505][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.506][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.506][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.506][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.507][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.507][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.507][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.508][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.508][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.509][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.509][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.509][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.510][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.511][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.511][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.511][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.512][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.513][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.513][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.513][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.514][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.515][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.515][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.515][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.516][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.518][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.520][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.527][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-10-31 18:46:34.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.529][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.530][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.531][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.531][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.535][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.536][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:34.537][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-10-31 18:46:34.537][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 18:46:34.538][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 18:46:34.539][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-10-31 18:46:34.539][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 18:46:34.539][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 18:46:34.540][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 18:46:34.540][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.540][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.542][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.543][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.543][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[2025-10-31 18:46:34.544][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.544][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.545][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.546][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.547][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.547][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.548][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.549][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.549][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.549][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.550][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.551][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.551][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.552][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.552][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.552][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.552][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.553][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.553][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.553][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.554][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.554][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.554][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.555][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.555][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.556][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.557][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.557][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.558][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.559][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.559][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.559][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.560][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.561][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.561][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.562][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.562][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.563][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.563][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.564][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.564][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.565][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.566][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.578][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-10-31 18:46:34.578][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.580][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.581][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.581][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.583][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.584][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:34.585][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-10-31 18:46:34.585][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 18:46:34.585][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 18:46:34.586][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-10-31 18:46:34.587][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 18:46:34.587][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 18:46:34.587][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 18:46:34.588][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.588][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.590][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:34.592][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.592][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.593][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.594][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.594][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.595][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.595][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.596][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.597][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.597][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.598][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.599][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.599][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.599][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.600][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.600][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.601][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.601][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.601][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.602][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.602][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.602][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.605][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.606][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.607][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.608][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.608][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.608][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.608][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.610][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.610][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.610][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.611][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.612][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.612][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.613][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.613][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.614][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.614][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.615][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.616][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.618][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.626][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-10-31 18:46:34.626][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.627][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.628][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.629][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.629][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.630][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.631][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.632][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:34.633][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-10-31 18:46:34.633][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 18:46:34.633][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 18:46:34.635][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-10-31 18:46:34.635][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 18:46:34.636][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 18:46:34.636][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 18:46:34.637][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.637][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.642][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.643][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:34.644][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.644][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.645][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.645][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.646][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.647][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.647][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.648][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.649][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.649][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.649][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.650][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.651][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.651][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.652][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.652][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.653][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.653][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.654][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.654][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.655][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.655][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.656][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.656][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.657][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.657][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.657][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.658][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.659][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.659][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.660][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.661][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.661][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.661][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.662][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.663][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.663][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.664][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.664][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.665][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.665][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.666][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.666][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.667][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.671][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.683][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-10-31 18:46:34.683][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.684][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.685][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.687][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.687][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.689][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.689][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:34.690][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-10-31 18:46:34.690][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 18:46:34.691][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 18:46:34.692][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-10-31 18:46:34.693][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 18:46:34.693][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 18:46:34.693][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 18:46:34.694][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.694][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.696][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.697][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:34.698][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.698][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.699][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.700][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.700][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.701][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.701][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.702][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.703][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.703][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.703][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.705][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.705][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.705][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.705][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.706][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.707][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.707][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.707][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.708][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.709][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.709][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.710][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.713][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.713][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.714][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.714][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.716][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.716][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.716][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.717][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.718][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.718][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.719][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.719][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.720][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.721][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.721][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.721][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.723][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.723][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.723][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.724][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.725][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.730][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.737][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-10-31 18:46:34.737][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.738][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.740][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.741][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.741][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.743][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.743][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:34.744][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-10-31 18:46:34.744][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 18:46:34.745][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 18:46:34.746][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-10-31 18:46:34.749][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 18:46:34.750][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 18:46:34.751][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 18:46:34.751][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.752][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.754][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.754][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:34.756][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.756][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.756][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.758][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.758][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.759][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.759][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.760][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.760][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.761][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.761][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.762][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.763][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.763][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.763][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.764][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.765][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.765][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.765][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.766][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.767][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.767][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.767][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.768][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.768][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.769][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.769][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.770][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.770][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.771][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.771][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.772][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.773][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.773][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.773][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.775][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.775][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.775][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.776][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.777][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.777][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.778][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.778][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.786][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.794][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-10-31 18:46:34.794][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.795][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.798][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.799][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.799][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.800][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.802][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.802][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:34.803][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-10-31 18:46:34.803][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 18:46:34.803][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 18:46:34.805][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-10-31 18:46:34.805][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 18:46:34.806][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 18:46:34.806][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 18:46:34.806][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.807][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.807][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.809][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.809][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:34.811][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.811][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.812][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.813][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.813][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.814][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.814][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.815][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.816][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.816][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.816][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.817][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.818][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.818][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.819][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.820][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.820][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.820][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.823][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.824][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.825][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.825][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.826][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.826][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.827][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.827][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.827][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.828][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.829][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.829][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.830][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.831][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.831][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.831][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.831][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.832][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.833][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.833][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.834][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.834][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.835][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.835][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.836][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.836][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.837][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.838][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.840][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.848][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-10-31 18:46:34.848][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.849][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.852][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.852][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.852][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.857][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.858][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:34.858][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-10-31 18:46:34.859][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 18:46:34.859][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 18:46:34.861][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-10-31 18:46:34.861][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 18:46:34.861][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 18:46:34.862][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 18:46:34.862][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.863][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.865][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.865][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:34.866][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.867][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.867][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.869][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.869][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.869][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.870][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.871][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.871][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.872][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.872][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.873][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.873][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.874][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.874][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.875][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.876][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.876][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.876][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.878][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.878][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.878][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.879][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.879][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.880][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.880][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.881][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.881][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.882][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.882][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.883][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.884][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.884][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.884][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.886][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.886][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.886][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.887][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.888][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.888][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.889][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.889][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.893][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.897][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.899][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.904][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-10-31 18:46:34.904][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.906][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.907][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.908][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.908][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.910][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.910][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:34.911][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-10-31 18:46:34.911][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 18:46:34.912][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 18:46:34.913][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-10-31 18:46:34.913][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 18:46:34.914][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 18:46:34.914][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 18:46:34.914][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.915][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.917][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.917][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:34.918][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.919][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.919][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.920][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.921][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.921][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.921][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.922][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.923][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.923][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.923][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.924][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.924][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.929][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.930][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.930][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.931][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.933][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.933][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.934][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.934][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.936][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.936][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.937][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.937][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.937][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.938][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.938][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.939][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.940][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.940][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.942][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.942][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.942][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.943][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.944][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.944][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.945][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.945][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.946][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.946][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.947][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.947][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.948][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.951][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:34.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.959][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-10-31 18:46:34.959][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.961][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.965][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:34.966][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.967][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.969][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.969][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:34.970][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-10-31 18:46:34.970][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 18:46:34.970][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 18:46:34.972][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-10-31 18:46:34.972][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 18:46:34.972][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 18:46:34.973][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 18:46:34.973][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:34.973][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:34.974][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:34.975][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:34.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:34.976][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:34.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:34.976][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.977][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.977][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:34.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:34.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.979][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.979][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.979][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.980][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:34.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:34.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.981][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.981][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.981][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.982][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:34.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:34.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.983][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.983][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.983][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.984][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:34.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:34.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.985][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.985][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.986][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.986][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:34.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.987][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.987][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:34.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.988][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.988][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.988][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.989][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.989][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:34.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:34.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.990][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.990][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.991][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.991][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:34.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.992][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.992][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.993][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.993][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:34.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:34.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.994][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.994][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.995][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.995][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:34.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:34.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:34.998][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:34.999][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:34.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:34.999][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.000][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:35.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:35.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.001][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:35.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:35.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.004][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:35.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:35.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:35.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:35.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:35.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:35.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:35.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:35.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:35.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:35.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:35.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:35.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.011][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-10-31 18:46:35.011][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.012][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.013][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-31 18:46:35.019][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:35.020][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:35.021][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-31 18:46:35.022][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 18:46:35.022][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.023][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.023][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.024][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.025][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.025][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.026][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.027][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.028][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.029][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.033][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.034][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.035][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.036][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.037][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.038][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.039][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.039][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.041][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.041][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.042][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.043][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.044][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.045][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.046][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.047][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.047][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.049][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.049][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.049][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.050][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.051][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.052][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.053][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.055][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.057][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.058][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.059][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.060][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.061][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.061][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.065][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.066][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.066][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.069][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.069][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.070][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.071][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.071][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.072][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.073][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.075][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.075][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.076][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.077][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.077][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.078][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.080][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.080][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.082][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.082][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.083][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.084][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.086][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.086][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.088][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.088][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.089][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.090][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.092][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.092][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.094][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.096][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.097][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.097][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.098][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.099][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.100][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.102][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.102][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.103][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.104][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.105][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.106][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.106][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.108][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.108][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.109][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.109][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.111][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.112][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.112][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.113][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.114][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.114][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.115][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.116][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.117][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.117][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.119][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.119][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.121][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.122][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.123][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.123][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.126][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.128][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.128][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.130][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.131][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.132][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.132][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.134][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.134][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.135][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.136][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.137][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.138][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.138][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.139][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.140][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.140][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.141][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.142][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.143][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.143][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.144][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.145][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.145][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.146][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.147][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.148][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.149][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.149][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.149][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.151][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.151][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.152][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.153][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.154][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.163][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.164][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.166][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-31 18:46:35.174][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:35.175][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:35.176][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-10-31 18:46:35.176][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-31 18:46:35.177][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:35.178][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:35.179][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-10-31 18:46:35.179][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 18:46:35.180][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.180][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.182][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.182][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:35.183][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-10-31 18:46:35.183][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 18:46:35.183][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 18:46:35.185][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-10-31 18:46:35.186][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 18:46:35.186][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 18:46:35.186][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 18:46:35.187][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.187][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.189][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.191][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:35.191][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:35.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.192][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:35.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:35.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.196][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:35.197][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:35.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.197][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.197][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:35.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:35.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.199][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:35.199][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:35.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.199][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.200][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:35.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:35.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.201][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:35.201][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:35.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.202][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.202][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:35.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:35.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.203][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:35.203][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:35.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.204][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.204][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:35.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:35.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.205][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:35.206][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:35.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.206][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.206][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:35.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:35.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.207][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:35.208][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.208][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.209][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:35.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.210][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.210][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.210][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.211][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.212][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:35.212][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:35.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.213][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.213][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:35.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:35.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.214][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:35.215][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:35.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.215][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.215][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:35.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:35.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.217][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:35.217][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:35.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.217][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.218][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:35.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:35.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.219][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.220][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:35.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:35.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.222][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:35.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:35.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:35.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:35.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:35.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:35.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:35.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:35.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:35.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:35.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:35.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:35.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.234][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-10-31 18:46:35.234][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.236][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.237][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.238][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.238][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.240][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.241][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.241][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.243][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.247][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.247][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:35.248][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-10-31 18:46:35.248][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 18:46:35.248][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 18:46:35.250][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-10-31 18:46:35.250][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 18:46:35.250][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 18:46:35.251][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 18:46:35.251][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.252][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.252][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.253][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.254][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.255][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:35.255][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:35.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.256][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:35.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:35.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.257][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:35.258][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:35.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.258][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.258][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:35.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:35.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.260][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:35.260][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:35.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.260][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.261][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:35.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:35.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.262][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:35.262][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:35.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.263][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.265][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:35.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:35.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.267][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:35.267][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:35.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.268][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.268][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:35.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:35.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.269][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:35.270][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:35.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.270][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.271][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:35.271][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.271][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.272][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:35.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.273][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.273][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.274][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.274][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.275][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:35.275][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:35.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.276][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.276][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:35.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:35.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.277][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:35.277][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:35.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.278][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.278][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:35.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:35.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.279][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:35.280][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:35.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.280][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.280][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:35.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:35.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.283][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:35.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:35.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:35.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:35.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:35.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:35.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:35.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:35.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:35.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:35.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:35.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:35.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:35.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:35.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.292][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-10-31 18:46:35.292][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.293][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.294][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-31 18:46:35.305][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:35.306][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:35.307][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-31 18:46:35.307][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 18:46:35.308][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.309][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.310][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.311][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.312][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.313][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.314][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.315][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.315][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.315][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.317][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.317][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.318][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.319][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.320][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.321][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.322][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.323][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.323][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.325][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.326][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.329][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.330][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.332][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.332][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.338][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.339][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.340][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.342][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.343][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.345][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.345][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.347][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.348][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.348][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.350][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.352][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.352][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.354][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.354][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.357][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.358][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.360][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.361][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.361][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.362][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.363][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.364][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.365][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.366][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.367][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.369][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.374][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.374][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.377][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.377][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.381][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.384][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.386][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.387][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.389][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.390][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.391][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.392][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.394][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.396][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.397][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.397][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.399][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.399][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.401][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.402][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.403][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.403][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.403][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.405][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.405][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.407][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.412][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.412][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.413][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.414][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.415][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.415][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.417][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.418][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.419][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.419][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.421][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.421][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.422][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.423][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.425][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.427][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.427][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.428][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.430][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.431][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.431][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.433][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.433][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.434][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.435][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.436][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.437][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.437][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.438][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.439][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.440][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.440][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.444][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.447][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.447][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.447][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.449][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.449][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.450][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.451][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.452][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.453][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.453][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.455][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.455][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.458][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-31 18:46:35.466][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:35.467][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:35.468][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-31 18:46:35.468][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 18:46:35.469][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.470][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.470][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.472][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.472][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.474][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.475][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.476][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.476][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.478][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.479][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.479][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.484][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.486][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.487][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.488][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.489][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.489][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.492][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.492][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.493][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.494][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.495][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.496][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.497][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.499][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.499][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.501][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.501][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.502][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.503][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.504][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.506][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.507][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.508][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.509][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.510][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.511][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.512][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.513][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.514][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.514][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.516][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.517][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.520][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.522][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.523][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.524][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.525][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.525][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.527][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.527][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.528][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.530][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.531][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.531][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.533][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.535][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.536][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.537][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.538][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.538][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.539][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.540][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.540][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.544][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.544][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.546][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.546][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.548][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.549][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.550][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.550][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.552][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.559][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.560][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.561][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.562][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.563][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.564][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.568][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.568][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.570][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.571][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.575][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.575][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.577][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.580][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.581][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.581][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.583][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.584][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.585][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.586][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.587][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.588][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.588][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.593][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.597][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.598][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.598][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.601][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.601][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.603][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.604][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.605][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.605][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.606][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.607][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.608][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.608][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.610][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.611][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.612][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.612][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.614][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.614][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.615][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.616][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.617][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.618][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.618][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.619][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.620][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.621][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.621][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.633][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-31 18:46:35.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-31 18:46:35.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-31 18:46:35.637][biodb::testThat]
biodb.INFO [2025-10-31 18:46:35.638][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-10-31 18:46:35.638][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 18:46:35.638][biodb::testThat]
biodb.TRACE[2025-10-31 18:46:35.639][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-31 18:46:35.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-31 18:46:35.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.641][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.642][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.643][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.644][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.646][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.647][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.649][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.649][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-31 18:46:35.650][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:35.651][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:35.652][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-31 18:46:35.652][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 18:46:35.653][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.653][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.654][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.655][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.656][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.657][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.658][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.659][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-31 18:46:35.660][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:35.661][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:35.662][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-31 18:46:35.662][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 18:46:35.663][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.663][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.665][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.666][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.666][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.668][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.752][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.753][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.754][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.754][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.757][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.757][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.758][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.759][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.760][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.761][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-31 18:46:35.762][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.762][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.764][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.765][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.765][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.767][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:35.768][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 18:46:35.768][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 18:46:35.768][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 18:46:35.768][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:35.769][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.769][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.769][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.770][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.770][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.771][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.771][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:35.771][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:35.771][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.772][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.772][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.772][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 18:46:35.773][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.779][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-31 18:46:35.779][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.779][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.781][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.782][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.782][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.785][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:35.785][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 18:46:35.785][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 18:46:35.785][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 18:46:35.786][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:35.786][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.786][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.787][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.787][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.787][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.788][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.788][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:35.788][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:35.788][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.789][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.789][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.790][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 18:46:35.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.793][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-31 18:46:35.794][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.794][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.796][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.797][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.799][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.800][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:35.800][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 18:46:35.800][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 18:46:35.800][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 18:46:35.801][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:35.801][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.801][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.802][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.802][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.802][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.803][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.803][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:35.804][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:35.804][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.804][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.805][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.805][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 18:46:35.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.806][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.808][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.809][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-31 18:46:35.809][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-31 18:46:35.809][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-31 18:46:35.813][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.814][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.815][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.817][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.837][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.837][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.840][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-31 18:46:35.842][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:35.843][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:35.843][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-31 18:46:35.844][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-31 18:46:35.845][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:35.846][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:35.847][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-31 18:46:35.847][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 18:46:35.848][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.848][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.849][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.851][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.854][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.856][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.857][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.860][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.860][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.861][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.863][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.864][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.864][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.866][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.866][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.867][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.868][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.869][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:35.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.878][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-31 18:46:35.885][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.886][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.888][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.888][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.889][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.890][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.891][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:35.891][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 18:46:35.892][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 18:46:35.892][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 18:46:35.892][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:35.892][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.893][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.893][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.894][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.894][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.894][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.894][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.895][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:35.895][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:35.895][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.895][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.896][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.896][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 18:46:35.896][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.897][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.899][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.900][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-31 18:46:35.900][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.900][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.902][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.903][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.916][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:35.916][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 18:46:35.917][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 18:46:35.917][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 18:46:35.917][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:35.918][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.918][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.918][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.919][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.919][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.919][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.920][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:35.923][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:35.923][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.924][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.924][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.924][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 18:46:35.925][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.926][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.927][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.928][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-31 18:46:35.928][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.929][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.931][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.931][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.932][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.933][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.934][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:35.934][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 18:46:35.934][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 18:46:35.935][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 18:46:35.935][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:35.935][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.936][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.936][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.936][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.937][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.937][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.937][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:35.938][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:35.938][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.938][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.939][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.939][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 18:46:35.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.940][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.944][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.945][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-31 18:46:35.946][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-31 18:46:35.946][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-31 18:46:35.949][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-31 18:46:35.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-31 18:46:35.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-31 18:46:35.951][biodb::testThat]
biodb.INFO [2025-10-31 18:46:35.952][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-10-31 18:46:35.952][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 18:46:35.952][biodb::testThat]
biodb.TRACE[2025-10-31 18:46:35.953][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-31 18:46:35.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-31 18:46:35.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.954][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.955][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.956][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.957][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.959][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.960][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.960][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.962][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.962][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-31 18:46:35.964][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:35.964][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:35.965][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-31 18:46:35.965][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 18:46:35.966][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.967][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.968][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.969][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.969][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.970][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.971][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-31 18:46:35.973][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:35.973][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:35.974][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-31 18:46:35.974][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 18:46:35.975][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.975][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.975][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.977][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.977][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.979][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.980][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.981][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.981][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.982][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.983][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.983][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.984][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.985][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:35.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:35.986][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-31 18:46:35.987][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:35.987][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:35.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:35.989][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:35.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:35.989][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:35.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:35.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.991][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.992][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:35.992][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 18:46:35.992][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 18:46:35.992][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 18:46:35.993][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:35.993][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.993][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.994][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.994][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.994][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.994][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.995][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:35.995][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:35.995][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.995][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.996][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.996][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 18:46:35.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.998][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:35.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:35.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:35.999][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-31 18:46:36.000][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.000][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.001][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.002][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.002][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[2025-10-31 18:46:36.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.003][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.004][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.005][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 18:46:36.005][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 18:46:36.005][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 18:46:36.005][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.006][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.006][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.006][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.006][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.007][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.007][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.007][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.008][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.008][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.008][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.009][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.009][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 18:46:36.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.012][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-31 18:46:36.012][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.012][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.014][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.015][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:36.015][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.017][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.017][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 18:46:36.018][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 18:46:36.018][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 18:46:36.018][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.018][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.019][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.019][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.019][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.020][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.020][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.020][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.020][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.020][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.021][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.021][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.021][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.022][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 18:46:36.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.023][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.025][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-31 18:46:36.025][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-31 18:46:36.025][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-31 18:46:36.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:36.035][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.035][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.037][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.037][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-31 18:46:36.038][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:36.039][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:36.040][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-31 18:46:36.040][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-31 18:46:36.041][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:36.041][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:36.042][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-31 18:46:36.042][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 18:46:36.043][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.043][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.045][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.045][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:36.046][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.047][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:36.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.049][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.049][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.051][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.051][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:36.052][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.052][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.053][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:36.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.056][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.057][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:36.057][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.058][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.059][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:36.060][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-31 18:46:36.061][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.061][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.061][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.062][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.063][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:36.063][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.065][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.066][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 18:46:36.066][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 18:46:36.066][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 18:46:36.066][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.067][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.067][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.067][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.068][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.068][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.068][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.069][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.069][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.069][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.069][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.070][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.070][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 18:46:36.070][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.071][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.072][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.073][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-31 18:46:36.073][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.074][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.075][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.076][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:36.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.078][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.079][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 18:46:36.079][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 18:46:36.079][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 18:46:36.079][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.080][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.080][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.080][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.080][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.081][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.081][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.081][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.082][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.082][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.082][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.083][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.083][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 18:46:36.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.086][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-31 18:46:36.086][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.087][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.088][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.089][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:36.089][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.091][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.092][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 18:46:36.092][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 18:46:36.092][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 18:46:36.092][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.093][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.093][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.093][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.093][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.094][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.094][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.094][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.095][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.095][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.095][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.096][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.096][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 18:46:36.096][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.097][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.098][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.099][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-31 18:46:36.099][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-31 18:46:36.100][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-31 18:46:36.102][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-31 18:46:36.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-31 18:46:36.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-31 18:46:36.104][biodb::testThat]
biodb.INFO [2025-10-31 18:46:36.105][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-10-31 18:46:36.105][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 18:46:36.105][biodb::testThat]
biodb.TRACE[2025-10-31 18:46:36.106][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-31 18:46:36.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-31 18:46:36.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.108][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.109][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:36.112][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.112][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.114][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-31 18:46:36.115][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:36.116][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:36.117][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-31 18:46:36.117][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 18:46:36.118][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.118][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.118][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.120][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.122][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:36.123][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.124][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.125][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-31 18:46:36.126][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:36.127][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:36.127][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-31 18:46:36.127][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 18:46:36.128][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.128][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.129][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.130][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.131][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:36.131][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.132][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.133][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:36.134][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.134][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.136][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.137][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:36.137][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.138][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.139][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:36.140][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-31 18:46:36.140][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.141][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.142][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.143][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:36.143][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.145][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.145][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 18:46:36.146][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 18:46:36.146][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 18:46:36.146][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.146][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.147][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.147][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.147][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.147][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.148][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.148][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.148][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.149][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.149][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.149][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.149][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 18:46:36.150][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.151][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.153][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-31 18:46:36.153][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.153][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.155][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.155][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:36.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.158][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.158][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 18:46:36.159][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 18:46:36.159][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 18:46:36.159][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.159][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.159][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.160][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.160][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.160][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.161][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.161][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.161][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.162][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.162][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.162][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.163][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 18:46:36.163][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.164][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.165][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.166][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-31 18:46:36.166][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.166][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.168][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.169][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:36.169][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.170][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.171][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.171][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 18:46:36.171][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 18:46:36.172][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 18:46:36.172][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.172][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.172][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.173][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.173][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.173][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.174][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.174][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.174][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.174][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.175][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.175][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.175][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 18:46:36.176][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.177][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.177][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.179][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-31 18:46:36.179][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-31 18:46:36.179][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-31 18:46:36.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:36.190][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.190][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.190][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.191][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.192][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.192][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-31 18:46:36.193][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:36.194][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:36.194][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-31 18:46:36.194][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-31 18:46:36.195][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:36.196][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:36.197][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-31 18:46:36.197][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 18:46:36.198][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.198][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.198][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.199][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.200][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:36.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.201][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.202][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:36.203][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.203][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.204][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.205][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.205][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:36.206][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.209][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.210][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:36.211][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.213][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.213][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:36.214][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.215][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.216][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:36.217][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-31 18:46:36.217][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.217][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.218][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.219][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.219][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:36.220][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.222][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.222][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 18:46:36.222][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 18:46:36.222][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 18:46:36.223][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.223][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.223][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.224][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.224][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.224][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.225][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.225][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.225][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.225][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.225][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.226][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.226][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 18:46:36.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.227][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.229][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-31 18:46:36.229][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.230][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.231][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.232][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:36.232][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.233][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.234][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.234][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 18:46:36.235][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 18:46:36.235][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 18:46:36.235][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.235][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.235][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.236][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.236][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.236][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.237][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.237][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.237][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.237][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.238][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.238][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.238][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 18:46:36.239][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.240][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.241][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.242][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-31 18:46:36.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.242][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.244][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.244][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:36.245][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.246][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.247][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.247][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 18:46:36.247][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 18:46:36.247][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 18:46:36.248][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.248][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.248][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.249][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.249][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.249][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.250][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.250][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.250][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 18:46:36.250][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.251][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.251][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.251][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 18:46:36.251][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.252][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.254][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-31 18:46:36.255][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-31 18:46:36.255][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-31 18:46:36.261][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-31 18:46:36.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-31 18:46:36.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-31 18:46:36.263][biodb::testThat]
biodb.INFO [2025-10-31 18:46:36.263][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-10-31 18:46:36.263][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 18:46:36.264][biodb::testThat]
biodb.DEBUG[2025-10-31 18:46:36.264][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-10-31 18:46:36.264][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 18:46:36.265][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 18:46:36.266][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-10-31 18:46:36.266][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 18:46:36.266][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 18:46:36.267][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 18:46:36.267][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.267][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.268][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.269][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.270][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:36.271][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.271][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.271][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.273][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:36.273][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:36.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.273][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.274][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:36.274][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:36.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.274][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.275][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:36.275][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:36.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.276][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.276][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:36.276][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:36.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.277][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.277][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:36.277][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:36.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.278][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.278][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:36.278][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.279][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.279][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.279][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.280][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.280][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:36.280][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:36.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.281][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.281][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:36.281][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:36.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.282][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.282][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:36.282][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:36.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.283][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.283][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.284][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:36.294][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-10-31 18:46:36.295][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-10-31 18:46:36.297][biodb::testThat]
biodb.INFO [2025-10-31 18:46:36.297][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-10-31 18:46:36.298][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 18:46:36.298][biodb::testThat]
biodb.DEBUG[2025-10-31 18:46:36.301][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-10-31 18:46:36.301][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-10-31 18:46:36.302][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-10-31 18:46:36.302][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 18:46:36.303][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-10-31 18:46:36.304][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-10-31 18:46:36.305][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-10-31 18:46:36.306][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 18:46:36.306][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-10-31 18:46:36.306][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-10-31 18:46:36.307][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.307][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.307][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.309][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.309][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:36.310][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.310][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.311][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.312][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:36.313][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:36.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.313][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.313][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:36.314][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:36.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.314][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.314][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:36.315][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:36.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.315][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.315][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:36.316][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:36.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.316][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.316][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:36.317][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:36.317][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.317][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.317][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:36.318][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.318][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.318][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.319][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.319][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.319][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:36.320][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:36.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.320][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.320][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:36.321][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:36.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.321][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.321][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:36.321][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:36.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.322][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.322][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.323][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.325][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:36.329][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.329][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.331][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.332][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:36.333][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.333][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.333][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.335][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:36.335][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:36.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.335][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.336][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:36.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:36.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.337][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:36.337][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:36.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.337][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.338][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:36.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:36.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.339][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:36.339][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:36.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.339][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.340][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:36.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:36.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.341][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:36.341][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:36.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.341][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.342][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:36.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:36.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.343][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:36.343][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:36.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.343][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.344][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:36.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:36.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.345][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:36.345][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.345][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.346][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:36.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.347][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.347][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.347][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.348][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.349][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:36.349][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:36.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.349][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.350][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:36.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:36.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.351][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:36.351][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:36.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.351][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.352][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:36.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:36.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.353][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:36.353][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:36.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.353][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.354][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:36.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:36.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.355][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.356][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.357][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:36.361][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.362][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.364][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.364][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:36.365][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.365][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.366][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.367][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:36.367][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:36.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.368][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.368][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:36.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:36.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.369][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:36.369][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:36.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.370][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.370][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:36.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:36.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.371][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:36.371][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:36.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.372][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.372][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:36.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:36.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.373][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:36.373][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:36.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.374][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.374][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:36.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:36.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.375][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:36.375][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:36.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.376][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.376][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:36.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:36.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.377][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:36.377][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.380][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.380][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:36.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:36.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.381][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.381][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.382][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.383][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:36.383][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:36.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.384][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.384][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:36.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:36.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.385][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:36.385][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:36.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.386][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.386][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:36.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:36.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.387][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:36.387][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:36.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.387][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.388][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:36.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:36.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.389][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.390][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.391][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:36.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:36.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:36.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:36.403][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-10-31 18:46:36.403][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-10-31 18:46:36.404][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-10-31 18:46:36.408][biodb::testThat]
biodb.INFO [2025-10-31 18:46:36.408][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-10-31 18:46:36.408][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 18:46:36.408][biodb::testThat]
biodb.INFO [2025-10-31 18:46:36.416][biodb::testThat]
biodb.INFO [2025-10-31 18:46:36.416][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-10-31 18:46:36.416][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 18:46:36.416][biodb::testThat]
biodb.INFO [2025-10-31 18:46:36.419][biodb::testThat]
biodb.INFO [2025-10-31 18:46:36.419][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-10-31 18:46:36.419][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 18:46:36.419][biodb::testThat]
sched.DEBUG[2025-10-31 18:46:36.420][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:36.421][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:36.424][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-10-31 18:46:36.424][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-31 18:46:36.428][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:36.429][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:36.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.429][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:36.430][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.430][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:36.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:36.430][ef$get] fields variable is a list.
biodb.INFO [2025-10-31 18:46:36.431][biodb::testThat]
biodb.INFO [2025-10-31 18:46:36.431][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-10-31 18:46:36.431][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 18:46:36.432][biodb::testThat]
biodb.ERROR[2025-10-31 18:46:36.436][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-10-31 18:46:36.441][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-10-31 18:46:36.444][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-31 18:46:36.445][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-31 18:46:36.445][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-31 18:46:36.445][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.446][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.446][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.446][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-31 18:46:36.450][biodb::testContext]
biodb.INFO [2025-10-31 18:46:36.450][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-31 18:46:36.450][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-10-31 18:46:36.450][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-31 18:46:36.451][biodb::testContext]
biodb.INFO [2025-10-31 18:46:36.451][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-10-31 18:46:36.452][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-31 18:46:36.453][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-31 18:46:36.454][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-31 18:46:36.454][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-31 18:46:36.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.455][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-31 18:46:36.455][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-31 18:46:36.456][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.456][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-31 18:46:36.457][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-31 18:46:36.457][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.457][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-31 18:46:36.458][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-31 18:46:36.458][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-31 18:46:36.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.459][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-31 18:46:36.459][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-31 18:46:36.459][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-31 18:46:36.460][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.460][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[2025-10-31 18:46:36.460][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-31 18:46:36.461][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-31 18:46:36.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.462][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-31 18:46:36.462][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-31 18:46:36.462][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-31 18:46:36.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.463][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-31 18:46:36.463][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-31 18:46:36.464][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.464][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-31 18:46:36.464][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-31 18:46:36.465][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-31 18:46:36.465][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.466][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-31 18:46:36.466][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-31 18:46:36.466][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-31 18:46:36.466][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-31 18:46:36.467][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-31 18:46:36.467][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-31 18:46:36.467][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.468][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-31 18:46:36.468][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-31 18:46:36.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.469][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-31 18:46:36.472][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-31 18:46:36.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.473][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-31 18:46:36.473][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-31 18:46:36.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.474][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-31 18:46:36.475][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-31 18:46:36.475][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-31 18:46:36.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.476][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-31 18:46:36.476][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-31 18:46:36.482][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-31 18:46:36.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.483][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-31 18:46:36.483][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-31 18:46:36.484][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-31 18:46:36.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.485][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-31 18:46:36.485][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.485][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-31 18:46:36.486][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.486][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 18:46:36.486][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.486][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.487][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.487][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.487][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-31 18:46:36.487][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 18:46:36.488][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.488][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-31 18:46:36.488][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 18:46:36.488][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.489][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.489][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-31 18:46:36.489][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-31 18:46:36.489][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-31 18:46:36.489][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-31 18:46:36.489][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-31 18:46:36.489][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 18:46:36.489][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:36.490][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:36.490][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 18:46:36.490][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:36.490][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:36.491][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.491][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.491][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 18:46:36.491][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 18:46:36.492][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.492][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.492][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-31 18:46:36.493][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.493][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-31 18:46:36.493][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.494][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 18:46:36.494][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.494][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.494][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.495][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.495][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-31 18:46:36.495][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 18:46:36.495][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.496][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-31 18:46:36.496][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 18:46:36.496][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.496][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.497][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-31 18:46:36.497][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-31 18:46:36.497][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-31 18:46:36.497][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-31 18:46:36.497][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-31 18:46:36.497][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 18:46:36.497][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:36.497][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:36.498][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 18:46:36.498][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:36.498][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:36.498][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.498][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.499][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 18:46:36.499][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 18:46:36.499][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.499][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.500][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-31 18:46:36.500][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.500][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-31 18:46:36.501][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.501][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 18:46:36.501][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.501][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.502][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.502][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.502][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-31 18:46:36.502][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 18:46:36.503][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.503][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-31 18:46:36.503][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 18:46:36.503][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.504][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.504][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.504][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 18:46:36.504][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:36.505][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:36.505][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 18:46:36.505][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:36.505][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:36.506][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.506][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.506][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 18:46:36.506][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 18:46:36.507][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.507][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.507][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-31 18:46:36.508][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.508][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-31 18:46:36.508][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.508][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 18:46:36.509][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.509][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.509][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.510][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.510][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-31 18:46:36.510][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 18:46:36.510][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.511][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-31 18:46:36.511][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 18:46:36.511][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.511][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.512][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.512][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 18:46:36.512][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:36.512][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:36.513][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 18:46:36.513][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:36.513][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:36.513][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.514][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.514][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 18:46:36.514][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 18:46:36.514][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.514][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.515][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-31 18:46:36.515][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.515][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.DEBUG[2025-10-31 18:46:36.516][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.518][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.519][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.521][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.523][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.524][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.526][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.DEBUG[2025-10-31 18:46:36.527][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.528][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.529][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[2025-10-31 18:46:36.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.530][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.533][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-31 18:46:36.534][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-31 18:46:36.534][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-31 18:46:36.534][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-31 18:46:36.535][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-31 18:46:36.535][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-31 18:46:36.536][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-31 18:46:36.536][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-31 18:46:36.536][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-31 18:46:36.537][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-31 18:46:36.537][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-31 18:46:36.537][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-31 18:46:36.538][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-31 18:46:36.538][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-31 18:46:36.539][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-31 18:46:36.539][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-31 18:46:36.539][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-31 18:46:36.540][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-31 18:46:36.540][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-31 18:46:36.540][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-31 18:46:36.541][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-31 18:46:36.541][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-31 18:46:36.542][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-31 18:46:36.542][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-31 18:46:36.542][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-31 18:46:36.543][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-31 18:46:36.543][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-31 18:46:36.543][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-31 18:46:36.544][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-31 18:46:36.544][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-31 18:46:36.545][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-31 18:46:36.545][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-31 18:46:36.545][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-31 18:46:36.546][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-31 18:46:36.546][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-31 18:46:36.546][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-31 18:46:36.547][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-31 18:46:36.547][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-31 18:46:36.548][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-31 18:46:36.548][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-31 18:46:36.548][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-31 18:46:36.549][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-31 18:46:36.549][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-31 18:46:36.549][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-31 18:46:36.550][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-31 18:46:36.550][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-31 18:46:36.551][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-31 18:46:36.551][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-31 18:46:36.551][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-31 18:46:36.552][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-31 18:46:36.552][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-31 18:46:36.552][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-31 18:46:36.553][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-31 18:46:36.553][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-31 18:46:36.554][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-31 18:46:36.554][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-31 18:46:36.554][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-31 18:46:36.555][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-31 18:46:36.555][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-31 18:46:36.555][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-31 18:46:36.556][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-31 18:46:36.556][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-31 18:46:36.557][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-31 18:46:36.557][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-31 18:46:36.560][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-31 18:46:36.561][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-31 18:46:36.561][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-31 18:46:36.562][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-31 18:46:36.562][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-31 18:46:36.562][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-31 18:46:36.563][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-31 18:46:36.563][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-31 18:46:36.563][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-31 18:46:36.564][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-31 18:46:36.564][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-31 18:46:36.565][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-31 18:46:36.565][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-31 18:46:36.565][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-31 18:46:36.566][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-31 18:46:36.566][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-31 18:46:36.566][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-31 18:46:36.567][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-31 18:46:36.567][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-31 18:46:36.567][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-31 18:46:36.568][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-10-31 18:46:36.568][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-31 18:46:36.568][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.569][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.569][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.570][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.571][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.572][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.574][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.574][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.574][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.575][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.577][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.577][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.581][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.587][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.588][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.589][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[2025-10-31 18:46:36.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.591][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[2025-10-31 18:46:36.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.593][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-31 18:46:36.593][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-31 18:46:36.593][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.594][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.594][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.594][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 18:46:36.594][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.595][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.595][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.595][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-31 18:46:36.595][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-31 18:46:36.596][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 18:46:36.596][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.596][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-31 18:46:36.596][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 18:46:36.597][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-31 18:46:36.597][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-31 18:46:36.597][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-31 18:46:36.597][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-31 18:46:36.597][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-31 18:46:36.597][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-31 18:46:36.597][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-31 18:46:36.597][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-31 18:46:36.597][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-31 18:46:36.597][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-31 18:46:36.597][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-31 18:46:36.597][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.597][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-31 18:46:36.597][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-31 18:46:36.597][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-31 18:46:36.597][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-31 18:46:36.598][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:36.598][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:36.598][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 18:46:36.598][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:36.598][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:36.599][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.599][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-31 18:46:36.599][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-31 18:46:36.599][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 18:46:36.599][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 18:46:36.600][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.600][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-31 18:46:36.600][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-31 18:46:36.600][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-31 18:46:36.601][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-31 18:46:36.601][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-31 18:46:36.601][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-31 18:46:36.602][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-31 18:46:36.602][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-31 18:46:36.603][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-31 18:46:36.604][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-31 18:46:36.605][biodb::testThat]
biodb.INFO [2025-10-31 18:46:36.605][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-10-31 18:46:36.605][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 18:46:36.606][biodb::testThat]
sched.DEBUG[2025-10-31 18:46:36.606][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-31 18:46:36.607][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:36.609][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-31 18:46:36.609][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-31 18:46:36.610][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:36.611][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:36.612][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-31 18:46:36.612][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 18:46:36.612][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.612][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.614][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.615][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-31 18:46:36.615][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:36.616][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:36.617][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-31 18:46:36.618][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 18:46:36.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.619][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.619][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.621][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.627][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.627][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.629][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.630][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-31 18:46:36.632][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:36.633][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:36.633][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-31 18:46:36.634][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 18:46:36.634][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.636][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.637][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-31 18:46:36.638][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:36.639][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:36.639][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-31 18:46:36.640][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 18:46:36.640][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.640][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.641][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.642][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.643][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.643][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.644][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.645][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.646][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.646][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".
sched.DEBUG[2025-10-31 18:46:36.647][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:36.648][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:36.649][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-31 18:46:36.649][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 18:46:36.650][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.650][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.655][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.656][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.656][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".
sched.DEBUG[2025-10-31 18:46:36.657][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:36.658][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:36.658][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-31 18:46:36.659][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 18:46:36.659][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.659][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.661][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-31 18:46:36.663][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:36.664][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:36.665][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-10-31 18:46:36.665][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 18:46:36.666][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.666][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.666][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.668][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.669][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-31 18:46:36.671][biodb::testThat]
biodb.INFO [2025-10-31 18:46:36.671][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-10-31 18:46:36.672][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 18:46:36.672][biodb::testThat]
sched.DEBUG[2025-10-31 18:46:36.673][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:36.674][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:36.675][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-10-31 18:46:36.675][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 18:46:36.676][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.676][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.678][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.678][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-31 18:46:36.680][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:36.681][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:36.682][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-10-31 18:46:36.682][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 18:46:36.682][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:36.683][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.684][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.685][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-31 18:46:36.687][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-31 18:46:36.687][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-31 18:46:36.687][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-31 18:46:36.688][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.688][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.688][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.689][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-31 18:46:36.690][biodb::testContext]
biodb.INFO [2025-10-31 18:46:36.690][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-31 18:46:36.691][biodb::testContext] Test context - Test web services
biodb.INFO [2025-10-31 18:46:36.691][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-31 18:46:36.691][biodb::testContext]
biodb.INFO [2025-10-31 18:46:36.692][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-10-31 18:46:36.693][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-31 18:46:36.694][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-31 18:46:36.694][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-31 18:46:36.695][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-31 18:46:36.695][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.696][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-31 18:46:36.696][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-31 18:46:36.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.697][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-31 18:46:36.697][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-31 18:46:36.698][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.698][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-31 18:46:36.699][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-31 18:46:36.699][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-31 18:46:36.699][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.700][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-31 18:46:36.700][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-31 18:46:36.700][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-31 18:46:36.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.701][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-31 18:46:36.702][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-31 18:46:36.702][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.703][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-31 18:46:36.703][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-31 18:46:36.703][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-31 18:46:36.703][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.704][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-31 18:46:36.704][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-31 18:46:36.705][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.705][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-31 18:46:36.706][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-31 18:46:36.706][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-31 18:46:36.706][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.707][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-31 18:46:36.707][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-31 18:46:36.707][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-31 18:46:36.707][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-31 18:46:36.708][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-31 18:46:36.708][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-31 18:46:36.708][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.709][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-31 18:46:36.709][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-31 18:46:36.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.710][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-31 18:46:36.710][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-31 18:46:36.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.711][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-31 18:46:36.712][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-31 18:46:36.712][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.713][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-31 18:46:36.713][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-31 18:46:36.713][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-31 18:46:36.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.714][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-31 18:46:36.714][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-31 18:46:36.720][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-31 18:46:36.720][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.721][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-31 18:46:36.721][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-31 18:46:36.721][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-31 18:46:36.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.722][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-31 18:46:36.723][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.723][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-31 18:46:36.724][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.724][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 18:46:36.724][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.724][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.725][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.725][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.725][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-31 18:46:36.725][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 18:46:36.726][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.726][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-31 18:46:36.726][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 18:46:36.726][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.727][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.727][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-31 18:46:36.727][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-31 18:46:36.727][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-31 18:46:36.727][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-31 18:46:36.727][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-31 18:46:36.727][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 18:46:36.728][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:36.728][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:36.728][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 18:46:36.728][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:36.728][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:36.729][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.729][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.729][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 18:46:36.729][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 18:46:36.730][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.730][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.730][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-31 18:46:36.731][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.731][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-31 18:46:36.731][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.732][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 18:46:36.732][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.732][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.732][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.733][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.733][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-31 18:46:36.733][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 18:46:36.734][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.734][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-31 18:46:36.734][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 18:46:36.734][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.735][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.735][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-31 18:46:36.735][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-31 18:46:36.735][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-31 18:46:36.735][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-31 18:46:36.735][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-31 18:46:36.735][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 18:46:36.735][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:36.736][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:36.736][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 18:46:36.736][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:36.736][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:36.737][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.737][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.737][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 18:46:36.737][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 18:46:36.738][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.738][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.738][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-31 18:46:36.739][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.739][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-31 18:46:36.739][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.740][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 18:46:36.740][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.740][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.740][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.741][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.741][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-31 18:46:36.741][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 18:46:36.741][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.742][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-31 18:46:36.742][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 18:46:36.742][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.743][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.743][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.743][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 18:46:36.743][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:36.744][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:36.744][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 18:46:36.744][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:36.744][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:36.745][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.745][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.745][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 18:46:36.745][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 18:46:36.746][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.746][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.746][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-31 18:46:36.747][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.747][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-31 18:46:36.747][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.747][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 18:46:36.748][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.748][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.748][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.748][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.749][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-31 18:46:36.749][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 18:46:36.749][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.750][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-31 18:46:36.750][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 18:46:36.750][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.750][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.751][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.751][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 18:46:36.751][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:36.751][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:36.752][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 18:46:36.752][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:36.752][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:36.752][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.753][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.756][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 18:46:36.757][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 18:46:36.757][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.757][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.758][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-31 18:46:36.758][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.760][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.761][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.762][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.763][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.DEBUG[2025-10-31 18:46:36.763][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.764][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.DEBUG[2025-10-31 18:46:36.764][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.765][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[2025-10-31 18:46:36.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.767][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.768][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.770][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[2025-10-31 18:46:36.770][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.771][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[2025-10-31 18:46:36.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.772][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.773][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.DEBUG[2025-10-31 18:46:36.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.775][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.776][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[2025-10-31 18:46:36.776][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.777][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-31 18:46:36.778][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-31 18:46:36.778][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-31 18:46:36.779][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-31 18:46:36.779][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-31 18:46:36.779][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-31 18:46:36.780][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-31 18:46:36.780][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-31 18:46:36.780][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-31 18:46:36.781][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-31 18:46:36.781][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-31 18:46:36.781][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-31 18:46:36.782][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-31 18:46:36.782][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-31 18:46:36.783][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-31 18:46:36.783][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-31 18:46:36.783][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-31 18:46:36.784][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-31 18:46:36.784][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-31 18:46:36.784][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-31 18:46:36.785][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-31 18:46:36.785][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-31 18:46:36.785][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-31 18:46:36.786][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-31 18:46:36.786][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-31 18:46:36.787][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-31 18:46:36.787][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-31 18:46:36.787][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-31 18:46:36.788][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-31 18:46:36.788][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-31 18:46:36.789][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-31 18:46:36.789][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-31 18:46:36.789][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-31 18:46:36.790][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-31 18:46:36.790][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-31 18:46:36.790][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-31 18:46:36.791][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-31 18:46:36.791][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-31 18:46:36.791][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-31 18:46:36.792][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-31 18:46:36.792][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-31 18:46:36.793][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-31 18:46:36.793][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-31 18:46:36.793][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-31 18:46:36.794][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-31 18:46:36.794][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-31 18:46:36.794][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-31 18:46:36.795][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-31 18:46:36.795][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-31 18:46:36.796][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-31 18:46:36.797][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-31 18:46:36.797][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-31 18:46:36.798][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-31 18:46:36.798][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-31 18:46:36.799][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-31 18:46:36.799][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-31 18:46:36.799][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-31 18:46:36.800][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-31 18:46:36.800][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-31 18:46:36.801][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-31 18:46:36.801][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-31 18:46:36.801][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-31 18:46:36.802][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-31 18:46:36.802][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-31 18:46:36.802][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-31 18:46:36.803][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-31 18:46:36.803][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-31 18:46:36.803][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-31 18:46:36.804][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-31 18:46:36.804][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-31 18:46:36.805][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-31 18:46:36.805][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-31 18:46:36.805][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-31 18:46:36.806][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-31 18:46:36.806][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-31 18:46:36.806][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-31 18:46:36.807][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-31 18:46:36.807][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-31 18:46:36.808][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-31 18:46:36.808][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-31 18:46:36.808][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-31 18:46:36.809][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-31 18:46:36.809][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-31 18:46:36.809][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-31 18:46:36.810][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-10-31 18:46:36.810][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-31 18:46:36.811][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.811][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.812][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.812][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.813][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.817][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.819][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.820][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.DEBUG[2025-10-31 18:46:36.820][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.822][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.825][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.827][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.832][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.833][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.835][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.836][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.DEBUG[2025-10-31 18:46:36.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.836][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.838][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-31 18:46:36.839][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-31 18:46:36.842][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.842][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.842][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.843][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 18:46:36.843][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.843][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.843][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.844][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-31 18:46:36.844][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-31 18:46:36.844][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 18:46:36.844][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.845][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-31 18:46:36.845][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 18:46:36.845][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-31 18:46:36.845][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-31 18:46:36.845][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-31 18:46:36.845][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-31 18:46:36.845][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-31 18:46:36.845][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-31 18:46:36.845][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-31 18:46:36.845][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-31 18:46:36.845][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-31 18:46:36.845][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-31 18:46:36.845][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-31 18:46:36.846][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.846][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-31 18:46:36.846][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-31 18:46:36.846][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-31 18:46:36.846][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-31 18:46:36.846][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:36.847][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:36.847][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 18:46:36.847][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:36.847][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:36.848][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.848][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-31 18:46:36.848][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-31 18:46:36.848][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 18:46:36.848][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 18:46:36.848][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.849][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-31 18:46:36.849][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-31 18:46:36.849][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-31 18:46:36.850][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-31 18:46:36.850][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-31 18:46:36.850][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-31 18:46:36.851][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-31 18:46:36.851][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-31 18:46:36.852][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-31 18:46:36.854][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-31 18:46:36.854][biodb::testThat]
biodb.INFO [2025-10-31 18:46:36.855][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-10-31 18:46:36.855][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 18:46:36.855][biodb::testThat]
sched.DEBUG[2025-10-31 18:46:36.856][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-31 18:46:36.857][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:36.859][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-31 18:46:36.859][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-31 18:46:36.860][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:36.861][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:36.862][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-31 18:46:36.863][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-31 18:46:36.865][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-31 18:46:36.866][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-31 18:46:36.866][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-31 18:46:36.866][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.867][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.867][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-31 18:46:36.869][biodb::testContext]
biodb.INFO [2025-10-31 18:46:36.869][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-31 18:46:36.869][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-10-31 18:46:36.869][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-31 18:46:36.870][biodb::testContext]
biodb.INFO [2025-10-31 18:46:36.871][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-10-31 18:46:36.872][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-31 18:46:36.873][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-31 18:46:36.874][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-31 18:46:36.874][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-31 18:46:36.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.875][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-31 18:46:36.875][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-31 18:46:36.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.876][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-31 18:46:36.877][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-31 18:46:36.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.878][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-31 18:46:36.878][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-31 18:46:36.878][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-31 18:46:36.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.879][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-31 18:46:36.879][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-31 18:46:36.880][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-31 18:46:36.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.881][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-31 18:46:36.881][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-31 18:46:36.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.882][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-31 18:46:36.882][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-31 18:46:36.882][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-31 18:46:36.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.883][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-31 18:46:36.884][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-31 18:46:36.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.885][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-31 18:46:36.885][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-31 18:46:36.885][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-31 18:46:36.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.886][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-31 18:46:36.887][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-31 18:46:36.887][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-31 18:46:36.887][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-31 18:46:36.887][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-31 18:46:36.888][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-31 18:46:36.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.889][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-31 18:46:36.889][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-31 18:46:36.889][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.890][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-31 18:46:36.890][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-31 18:46:36.890][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.891][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-31 18:46:36.891][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-31 18:46:36.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.892][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-31 18:46:36.893][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-31 18:46:36.893][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-31 18:46:36.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.894][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-31 18:46:36.894][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-31 18:46:36.899][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-31 18:46:36.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.900][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-31 18:46:36.900][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-31 18:46:36.901][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-31 18:46:36.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.902][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-31 18:46:36.902][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.903][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-31 18:46:36.903][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.903][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 18:46:36.903][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.904][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.904][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.904][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.904][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-31 18:46:36.905][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 18:46:36.905][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.905][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-31 18:46:36.906][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 18:46:36.906][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.906][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.906][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-31 18:46:36.906][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-31 18:46:36.906][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-31 18:46:36.906][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-31 18:46:36.906][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-31 18:46:36.907][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 18:46:36.907][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:36.907][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:36.907][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 18:46:36.908][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:36.908][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:36.908][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.908][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.909][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 18:46:36.909][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 18:46:36.909][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.909][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.910][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-31 18:46:36.910][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.910][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-31 18:46:36.911][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.911][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 18:46:36.911][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.911][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.912][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.912][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.912][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-31 18:46:36.913][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 18:46:36.913][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.913][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-31 18:46:36.913][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 18:46:36.914][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.914][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.914][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-31 18:46:36.914][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-31 18:46:36.914][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-31 18:46:36.914][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-31 18:46:36.914][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-31 18:46:36.914][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 18:46:36.915][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:36.915][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:36.915][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 18:46:36.915][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:36.916][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:36.916][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.916][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.916][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 18:46:36.917][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 18:46:36.917][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.917][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.917][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-31 18:46:36.918][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.918][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-31 18:46:36.919][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.919][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 18:46:36.919][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.919][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.920][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.920][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.920][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-31 18:46:36.920][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 18:46:36.921][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.921][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-31 18:46:36.921][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 18:46:36.921][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.922][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.922][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.922][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 18:46:36.922][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:36.923][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:36.923][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 18:46:36.923][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:36.923][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:36.924][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.924][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.924][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 18:46:36.924][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 18:46:36.925][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.925][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.925][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-31 18:46:36.926][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.926][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-31 18:46:36.926][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.927][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 18:46:36.927][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.927][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.927][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.928][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.928][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-31 18:46:36.928][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 18:46:36.928][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.929][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-31 18:46:36.929][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 18:46:36.929][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.930][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:36.930][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.930][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 18:46:36.930][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:36.931][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:36.931][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 18:46:36.931][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:36.931][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:36.932][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 18:46:36.932][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.932][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 18:46:36.932][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 18:46:36.932][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:36.933][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 18:46:36.933][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-31 18:46:36.933][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.943][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.944][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.946][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.950][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.955][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-31 18:46:36.955][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-31 18:46:36.955][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-31 18:46:36.956][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-31 18:46:36.956][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-31 18:46:36.957][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-31 18:46:36.957][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-31 18:46:36.957][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-31 18:46:36.958][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-31 18:46:36.958][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-31 18:46:36.958][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-31 18:46:36.959][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-31 18:46:36.959][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-31 18:46:36.960][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-31 18:46:36.960][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-31 18:46:36.960][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-31 18:46:36.961][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-31 18:46:36.961][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-31 18:46:36.961][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-31 18:46:36.962][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-31 18:46:36.962][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-31 18:46:36.963][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-31 18:46:36.963][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-31 18:46:36.963][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-31 18:46:36.964][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-31 18:46:36.964][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-31 18:46:36.964][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-31 18:46:36.965][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-31 18:46:36.965][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-31 18:46:36.965][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-31 18:46:36.966][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-31 18:46:36.966][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-31 18:46:36.967][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-31 18:46:36.967][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-31 18:46:36.967][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-31 18:46:36.968][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-31 18:46:36.968][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-31 18:46:36.968][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-31 18:46:36.969][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-31 18:46:36.969][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-31 18:46:36.970][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-31 18:46:36.970][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-31 18:46:36.970][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-31 18:46:36.971][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-31 18:46:36.971][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-31 18:46:36.972][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-31 18:46:36.972][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-31 18:46:36.972][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-31 18:46:36.973][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-31 18:46:36.973][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-31 18:46:36.973][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-31 18:46:36.974][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-31 18:46:36.974][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-31 18:46:36.975][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-31 18:46:36.975][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-31 18:46:36.975][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-31 18:46:36.976][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-31 18:46:36.976][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-31 18:46:36.977][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-31 18:46:36.977][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-31 18:46:36.977][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-31 18:46:36.978][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-31 18:46:36.978][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-31 18:46:36.978][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-31 18:46:36.979][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-31 18:46:36.979][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-31 18:46:36.979][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-31 18:46:36.980][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-31 18:46:36.980][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-31 18:46:36.981][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-31 18:46:36.981][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-31 18:46:36.981][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-31 18:46:36.982][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-31 18:46:36.982][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-31 18:46:36.982][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-31 18:46:36.983][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-31 18:46:36.983][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-31 18:46:36.984][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-31 18:46:36.984][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-31 18:46:36.984][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-31 18:46:36.985][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-31 18:46:36.985][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-31 18:46:36.985][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-31 18:46:36.986][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-31 18:46:36.986][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-10-31 18:46:36.987][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-31 18:46:36.987][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.987][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.989][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.992][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[2025-10-31 18:46:36.993][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.993][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.994][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.997][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:36.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:36.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:36.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:36.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:36.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:36.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:36.999][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:37.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:37.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:37.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:37.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:37.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:37.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:37.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:37.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:37.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:37.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:37.002][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.DEBUG[2025-10-31 18:46:37.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:37.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:37.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:37.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:37.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:37.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:37.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:37.004][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:37.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:37.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:37.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:37.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:37.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:37.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:37.005][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:37.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:37.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:37.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:37.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:37.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:37.007][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[2025-10-31 18:46:37.007][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:37.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:37.007][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:37.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:37.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:37.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:37.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:37.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:37.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:37.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:37.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:37.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:37.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:37.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:37.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:37.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:37.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:37.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:37.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:37.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:37.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:37.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 18:46:37.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:37.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:37.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:37.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:37.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:37.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 18:46:37.013][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-31 18:46:37.016][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-31 18:46:37.017][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:37.017][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-31 18:46:37.018][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:37.018][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 18:46:37.018][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:37.019][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 18:46:37.019][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:37.019][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-31 18:46:37.019][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-31 18:46:37.020][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 18:46:37.020][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:37.020][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-31 18:46:37.021][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 18:46:37.021][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-31 18:46:37.021][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-31 18:46:37.021][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-31 18:46:37.021][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-31 18:46:37.021][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-31 18:46:37.021][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-31 18:46:37.021][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-31 18:46:37.021][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-31 18:46:37.021][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-31 18:46:37.021][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-31 18:46:37.021][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-31 18:46:37.024][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-31 18:46:37.024][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-31 18:46:37.024][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-31 18:46:37.024][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-31 18:46:37.025][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-31 18:46:37.025][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:37.025][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:37.025][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 18:46:37.026][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 18:46:37.026][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 18:46:37.026][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 18:46:37.026][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-31 18:46:37.026][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-31 18:46:37.027][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 18:46:37.027][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 18:46:37.027][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-31 18:46:37.027][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-31 18:46:37.027][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-31 18:46:37.028][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-31 18:46:37.028][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-31 18:46:37.029][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-31 18:46:37.029][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-31 18:46:37.029][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-31 18:46:37.030][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-31 18:46:37.031][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-31 18:46:37.033][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-31 18:46:37.033][biodb::testThat]
biodb.INFO [2025-10-31 18:46:37.033][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-10-31 18:46:37.034][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 18:46:37.034][biodb::testThat]
sched.DEBUG[2025-10-31 18:46:37.035][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-31 18:46:37.035][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:37.037][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-31 18:46:37.038][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-31 18:46:37.039][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-31 18:46:37.040][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-31 18:46:37.040][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-31 18:46:37.041][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 18:46:37.042][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-10-31 18:46:37.046][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 18:46:37.046][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 18:46:37.050][FUN] Found encoding UTF-8 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-10-31 18:46:37.051][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 18:46:37.052][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 18:46:37.052][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 18:46:37.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 18:46:37.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:37.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:37.055][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:37.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:37.055][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:37.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 18:46:37.057][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:37.057][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:37.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.058][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:37.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:37.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.059][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:37.059][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:37.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.060][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.060][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 18:46:37.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 18:46:37.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.061][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:37.062][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:37.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.062][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.063][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 18:46:37.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 18:46:37.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.064][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 18:46:37.064][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 18:46:37.064][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.064][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.065][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 18:46:37.065][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 18:46:37.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.066][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.066][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:37.066][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:37.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.067][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.067][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:37.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 18:46:37.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.068][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:37.068][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:37.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.069][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.069][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 18:46:37.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 18:46:37.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.071][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:37.071][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:37.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.071][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:37.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 18:46:37.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.073][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:37.073][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:37.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.074][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.074][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 18:46:37.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 18:46:37.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.075][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:37.076][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:37.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.076][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.077][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 18:46:37.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 18:46:37.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.078][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:37.078][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:37.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.079][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.079][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 18:46:37.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 18:46:37.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:37.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:37.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:37.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:37.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:37.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:37.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 18:46:37.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 18:46:37.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:37.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:37.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:37.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:37.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:37.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:37.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:37.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:37.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:37.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:37.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 18:46:37.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 18:46:37.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 18:46:37.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 18:46:37.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 18:46:37.091][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-10-31 18:46:37.092][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-31 18:46:37.093][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-31 18:46:37.093][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-31 18:46:37.093][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 18:46:37.094][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 18:46:37.094][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 18:46:37.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 18:46:37.094][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 18:46:37.095][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 357 ]
> 
> proc.time()
   user  system elapsed 
  4.567   0.250   5.865

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn0.7240.2311.002
ChebiEntry0.0860.0070.093