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This page was generated on 2025-11-14 11:36 -0500 (Fri, 14 Nov 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_64R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences" 4825
kjohnson3macOS 13.7.7 Venturaarm64R Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences" 4547
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 208/2325HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.17.0  (landing page)
Pierrick Roger
Snapshot Date: 2025-11-13 13:40 -0500 (Thu, 13 Nov 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: devel
git_last_commit: 80ee611
git_last_commit_date: 2025-10-29 11:12:25 -0500 (Wed, 29 Oct 2025)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    ERROR  skipped
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: 1.17.0
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_1.17.0.tar.gz
StartedAt: 2025-11-13 18:46:43 -0500 (Thu, 13 Nov 2025)
EndedAt: 2025-11-13 18:47:14 -0500 (Thu, 13 Nov 2025)
EllapsedTime: 31.4 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_1.17.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.23-bioc/meat/biodbChebi.Rcheck’
* using R Under development (unstable) (2025-11-04 r88984)
* 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 13.7.8
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.17.0’
* 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/4.6-arm64/Resources/library’
* installing *source* package ‘biodbChebi’ ...
** this is package ‘biodbChebi’ version ‘1.17.0’
** 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 Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences"
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 [2025-11-13 18:47:04.896][biodb::testContext]
biodb.INFO [2025-11-13 18:47:04.898][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-13 18:47:04.899][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-11-13 18:47:04.899][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-13 18:47:04.899][biodb::testContext]
biodb.INFO [2025-11-13 18:47:04.903][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.19.0.
biodb.DEBUG[2025-11-13 18:47:04.904][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-11-13 18:47:04.908][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-13 18:47:04.908][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-13 18:47:04.909][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-13 18:47:04.909][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:04.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:04.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:04.910][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-13 18:47:04.916][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-13 18:47:04.916][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:04.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:04.917][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.DEBUG[2025-11-13 18:47:04.917][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-13 18:47:04.918][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-13 18:47:04.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:04.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:04.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:04.924][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-13 18:47:04.924][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-13 18:47:04.925][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-13 18:47:04.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:04.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:04.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:04.926][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-13 18:47:04.926][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-13 18:47:04.927][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-13 18:47:04.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:04.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:04.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:04.928][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-13 18:47:04.928][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-13 18:47:04.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:04.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:04.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:04.929][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-13 18:47:04.929][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-13 18:47:04.930][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-13 18:47:04.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:04.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:04.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:04.930][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-13 18:47:04.931][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-13 18:47:04.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:04.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:04.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:04.932][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-13 18:47:04.932][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-13 18:47:04.932][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-13 18:47:04.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:04.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:04.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:04.933][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-13 18:47:04.934][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-13 18:47:04.934][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-13 18:47:04.934][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-13 18:47:04.934][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-13 18:47:04.935][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-13 18:47:04.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:04.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:04.935][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[2025-11-13 18:47:04.936][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-13 18:47:04.936][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-13 18:47:04.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:04.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:04.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:04.937][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-13 18:47:04.937][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-13 18:47:04.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:04.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:04.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:04.938][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-13 18:47:04.938][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-13 18:47:04.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:04.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:04.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:04.939][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-13 18:47:04.940][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-13 18:47:04.940][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-13 18:47:04.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:04.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:04.941][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[2025-11-13 18:47:04.941][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-13 18:47:04.941][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-13 18:47:04.947][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-13 18:47:04.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:04.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:04.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:04.948][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-13 18:47:04.948][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-13 18:47:04.949][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-13 18:47:04.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:04.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:04.950][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[2025-11-13 18:47:04.951][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-13 18:47:04.962][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:04.967][self$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[2025-11-13 18:47:04.968][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:04.968][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-13 18:47:04.968][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:04.969][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-13 18:47:04.969][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:04.969][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-13 18:47:04.970][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-13 18:47:04.970][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-13 18:47:04.970][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:04.970][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-13 18:47:04.971][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-13 18:47:04.971][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:04.971][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:04.971][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-13 18:47:04.971][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-13 18:47:04.971][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-13 18:47:04.971][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-13 18:47:04.971][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-13 18:47:04.972][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-13 18:47:04.972][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:04.972][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:04.973][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-13 18:47:04.973][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:04.973][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:04.973][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-13 18:47:04.974][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:04.974][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-13 18:47:04.974][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-13 18:47:04.974][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:04.975][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:04.975][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-13 18:47:04.976][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:04.976][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-13 18:47:04.976][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:04.976][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-13 18:47:04.977][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:04.977][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-13 18:47:04.977][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:04.978][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-13 18:47:04.978][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-13 18:47:04.981][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-13 18:47:04.981][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:04.982][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-13 18:47:04.982][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-13 18:47:04.982][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:04.982][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:04.983][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-13 18:47:04.983][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-13 18:47:04.983][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-13 18:47:04.983][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-13 18:47:04.983][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-13 18:47:04.983][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-13 18:47:04.983][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:04.984][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:04.984][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-13 18:47:04.984][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:04.984][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:04.985][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-13 18:47:04.985][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:04.985][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-13 18:47:04.985][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-13 18:47:04.986][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:04.986][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:04.986][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-13 18:47:04.987][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:04.987][self$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[2025-11-13 18:47:04.988][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:04.988][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-13 18:47:04.988][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:04.988][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-13 18:47:04.989][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:04.989][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-13 18:47:04.989][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-13 18:47:04.990][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-13 18:47:04.990][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:04.990][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-13 18:47:04.990][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-13 18:47:04.991][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:04.991][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:04.991][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:04.992][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-13 18:47:04.992][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:04.992][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:04.992][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-13 18:47:04.993][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:04.993][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:04.993][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-13 18:47:04.993][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:04.994][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-13 18:47:04.994][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-13 18:47:04.994][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:04.994][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:04.995][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-13 18:47:04.995][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:04.995][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-13 18:47:04.996][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:04.996][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-13 18:47:04.996][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:04.997][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-13 18:47:04.997][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:04.997][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-13 18:47:04.997][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-13 18:47:04.998][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-13 18:47:04.998][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:04.998][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-13 18:47:04.999][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-13 18:47:04.999][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:04.999][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:04.999][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:05.000][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-13 18:47:05.000][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:05.000][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:05.000][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-13 18:47:05.001][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:05.001][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:05.001][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-13 18:47:05.001][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:05.002][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-13 18:47:05.002][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-13 18:47:05.002][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:05.002][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:05.004][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-13 18:47:05.004][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.005][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[2025-11-13 18:47:05.005][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:05.006][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.007][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[2025-11-13 18:47:05.007][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.008][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[2025-11-13 18:47:05.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:05.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.011][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[2025-11-13 18:47:05.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:05.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:05.014][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:05.015][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:05.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:05.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:05.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:05.021][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:05.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:05.024][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:05.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:05.027][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-13 18:47:05.029][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-13 18:47:05.030][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-13 18:47:05.030][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-13 18:47:05.031][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-13 18:47:05.031][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-13 18:47:05.031][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-13 18:47:05.034][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-13 18:47:05.034][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-13 18:47:05.035][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-13 18:47:05.035][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-13 18:47:05.036][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-13 18:47:05.036][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-13 18:47:05.036][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-13 18:47:05.037][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-13 18:47:05.037][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-13 18:47:05.038][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-13 18:47:05.038][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-13 18:47:05.038][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-13 18:47:05.039][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-13 18:47:05.039][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-13 18:47:05.039][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-13 18:47:05.040][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-13 18:47:05.040][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-13 18:47:05.040][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-13 18:47:05.041][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-13 18:47:05.041][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-13 18:47:05.042][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-13 18:47:05.042][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-13 18:47:05.042][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-13 18:47:05.043][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-13 18:47:05.043][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-13 18:47:05.044][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-13 18:47:05.044][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-13 18:47:05.044][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-13 18:47:05.045][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-13 18:47:05.045][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-13 18:47:05.046][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-13 18:47:05.046][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-13 18:47:05.046][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-13 18:47:05.047][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-13 18:47:05.047][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-13 18:47:05.050][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-13 18:47:05.051][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-13 18:47:05.051][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-13 18:47:05.052][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-13 18:47:05.052][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-13 18:47:05.052][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-13 18:47:05.053][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-13 18:47:05.053][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-13 18:47:05.054][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-13 18:47:05.054][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-13 18:47:05.054][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-13 18:47:05.055][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-13 18:47:05.055][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-13 18:47:05.055][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-13 18:47:05.056][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-13 18:47:05.056][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-13 18:47:05.057][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-13 18:47:05.057][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-13 18:47:05.057][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-13 18:47:05.058][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-13 18:47:05.058][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-13 18:47:05.059][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-13 18:47:05.059][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-13 18:47:05.059][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-13 18:47:05.060][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-13 18:47:05.060][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-13 18:47:05.060][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-13 18:47:05.061][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-13 18:47:05.061][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-13 18:47:05.062][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-13 18:47:05.062][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-13 18:47:05.062][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-13 18:47:05.063][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-13 18:47:05.063][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-13 18:47:05.063][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-13 18:47:05.064][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-13 18:47:05.064][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-13 18:47:05.065][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-13 18:47:05.065][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-13 18:47:05.065][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-13 18:47:05.066][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-13 18:47:05.069][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-13 18:47:05.070][initialize] This is biodb version 1.19.0.
biodb.DEBUG[2025-11-13 18:47:05.071][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-13 18:47:05.072][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.072][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.072][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[2025-11-13 18:47:05.074][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:05.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:05.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.076][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[2025-11-13 18:47:05.076][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:05.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:05.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.077][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[2025-11-13 18:47:05.078][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:05.078][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:05.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:05.079][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:05.080][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:05.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:05.081][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:05.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:05.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:05.083][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:05.083][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:05.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:05.087][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:05.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:05.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:05.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:05.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:05.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:05.090][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:05.091][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:05.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:05.092][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:05.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:05.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:05.094][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:05.094][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:05.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:05.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:05.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:05.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:05.097][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:05.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:05.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:05.098][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:05.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:05.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:05.100][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:05.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:05.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:05.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:05.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:05.102][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:05.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.103][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.DEBUG[2025-11-13 18:47:05.104][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-13 18:47:05.107][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-13 18:47:05.108][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:05.108][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-13 18:47:05.109][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:05.109][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-13 18:47:05.109][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:05.110][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-13 18:47:05.110][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:05.110][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-13 18:47:05.110][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-13 18:47:05.111][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-13 18:47:05.111][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:05.111][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-13 18:47:05.112][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-13 18:47:05.112][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-13 18:47:05.112][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-13 18:47:05.112][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-13 18:47:05.112][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-13 18:47:05.112][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-13 18:47:05.112][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-13 18:47:05.112][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-13 18:47:05.112][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-13 18:47:05.112][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-13 18:47:05.112][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-13 18:47:05.112][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-13 18:47:05.112][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:05.112][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-13 18:47:05.112][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-13 18:47:05.112][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-13 18:47:05.113][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-13 18:47:05.113][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:05.113][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:05.114][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-13 18:47:05.114][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:05.114][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:05.114][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-13 18:47:05.115][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-13 18:47:05.115][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-13 18:47:05.115][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-13 18:47:05.115][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-13 18:47:05.115][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:05.116][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-13 18:47:05.116][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-13 18:47:05.118][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-13 18:47:05.118][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-13 18:47:05.119][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-13 18:47:05.119][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-13 18:47:05.120][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-13 18:47:05.120][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-13 18:47:05.134][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-13 18:47:05.142][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-13 18:47:05.147][biodb::testThat]
biodb.INFO [2025-11-13 18:47:05.148][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-11-13 18:47:05.148][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-13 18:47:05.148][biodb::testThat]
biodb.TRACE[2025-11-13 18:47:05.151][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-11-13 18:47:05.156][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-13 18:47:05.157][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-13 18:47:05.161][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:05.162][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:05.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:05.169][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.169][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:05.174][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.175][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.175][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.181][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:05.181][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:05.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.182][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.190][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:05.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:05.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.192][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:05.192][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:05.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.193][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.193][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:05.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:05.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.194][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:05.194][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:05.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.195][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.195][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:05.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:05.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.196][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.197][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.197][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.197][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.199][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:05.199][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:05.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.199][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.200][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:05.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:05.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.201][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:05.201][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.202][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.202][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:05.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.203][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:05.204][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:05.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.204][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.204][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:05.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:05.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.209][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:05.209][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:05.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.210][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.210][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:05.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:05.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.212][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:05.212][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:05.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.212][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.213][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:05.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:05.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.214][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:05.214][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:05.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.215][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.215][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:05.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:05.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.219][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.236][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:05.238][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-11-13 18:47:05.239][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:05.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:05.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.240][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:05.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:05.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.275][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.277][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.278][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.279][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.281][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-13 18:47:05.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-13 18:47:05.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.282][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-13 18:47:05.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-13 18:47:05.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.286][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-13 18:47:05.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-13 18:47:05.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.287][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-13 18:47:05.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-13 18:47:05.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.296][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.307][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.308][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.309][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.320][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.321][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.321][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.326][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.328][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.329][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.330][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.330][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.331][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.331][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.335][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:05.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:05.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.337][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:05.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:05.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.338][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:05.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:05.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.339][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:05.339][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:05.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.340][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.340][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:05.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:05.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.344][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:05.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:05.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.345][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:05.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:05.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.346][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:05.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:05.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.347][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:05.347][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:05.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.348][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.348][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:05.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:05.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.352][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.353][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.354][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.356][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.356][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.356][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.357][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.363][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:05.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:05.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.365][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:05.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:05.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.366][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:05.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:05.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.367][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:05.367][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:05.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.368][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:05.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:05.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.372][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:05.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:05.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.373][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:05.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:05.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.375][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:05.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:05.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.376][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:05.376][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:05.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.376][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.377][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:05.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:05.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.381][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-13 18:47:05.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:05.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.382][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-13 18:47:05.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:05.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.383][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-13 18:47:05.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:05.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.384][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-13 18:47:05.384][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:05.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.385][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.385][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-13 18:47:05.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:05.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.389][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:05.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:05.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.391][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:05.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:05.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.392][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:05.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:05.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.393][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:05.393][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:05.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.394][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.394][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:05.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:05.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.399][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:05.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:05.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.400][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:05.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:05.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.401][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:05.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:05.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.403][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:05.403][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:05.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.404][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.404][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:05.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:05.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.412][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.413][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.414][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.416][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.416][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.416][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.417][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.417][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.421][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:05.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:05.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.422][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:05.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:05.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.424][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:05.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:05.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.425][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:05.425][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:05.425][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.425][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.426][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:05.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:05.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.429][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.430][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.430][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.432][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:05.432][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:05.433][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.433][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.435][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:05.435][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:05.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.436][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.437][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:05.438][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:05.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.438][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.440][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.440][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.441][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.442][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:05.443][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:05.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.443][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.445][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.445][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.446][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.448][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:05.448][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:05.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.449][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.450][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-13 18:47:05.450][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:05.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.451][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.455][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:05.456][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:05.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.456][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.458][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:05.458][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:05.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.459][ef$get] fields variable is a list.
biodb.INFO [2025-11-13 18:47:05.461][biodb::testThat]
biodb.INFO [2025-11-13 18:47:05.462][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-11-13 18:47:05.462][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-13 18:47:05.462][biodb::testThat]
biodb.DEBUG[2025-11-13 18:47:05.467][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-11-13 18:47:05.471][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-13 18:47:05.472][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-13 18:47:05.475][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-11-13 18:47:05.475][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-13 18:47:05.483][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-13 18:47:05.483][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-13 18:47:05.484][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:05.484][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:05.485][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:05.486][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:05.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:05.487][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:05.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:05.488][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.489][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.489][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.496][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:05.497][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:05.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.497][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.498][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:05.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:05.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.502][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:05.502][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:05.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.503][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.503][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:05.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:05.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.505][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:05.505][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:05.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.506][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.506][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:05.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:05.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.507][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.507][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.508][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.508][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.509][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:05.510][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:05.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.510][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.511][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:05.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:05.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.512][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:05.512][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.512][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.513][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:05.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.514][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:05.514][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:05.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.515][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.515][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:05.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:05.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.516][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:05.516][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:05.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.517][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.517][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:05.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:05.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.519][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:05.520][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:05.520][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.521][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.521][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:05.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:05.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.522][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:05.523][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:05.523][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.523][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.524][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:05.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:05.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.527][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.529][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:05.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:05.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:05.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:05.538][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-11-13 18:47:05.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-11-13 18:47:05.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-11-13 18:47:05.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-11-13 18:47:05.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-11-13 18:47:05.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.541][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-11-13 18:47:05.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-11-13 18:47:05.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-13 18:47:05.552][biodb::testThat]
biodb.INFO [2025-11-13 18:47:05.552][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-11-13 18:47:05.553][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-13 18:47:05.553][biodb::testThat]
biodb.TRACE[2025-11-13 18:47:05.554][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:05.554][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:05.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.555][ef$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:05.555][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-11-13 18:47:05.564][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:05.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:05.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.565][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:05.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:05.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.566][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:05.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:05.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:05.568][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-11-13 18:47:05.570][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-13 18:47:05.577][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:05.579][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-13 18:47:05.579][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-13 18:47:05.588][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 [2025-11-13 18:47:05.598][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:05.599][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-13 18:47:05.600][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-13 18:47:05.600][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-11-13 18:47:05.605][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:05.605][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:05.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.606][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.606][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.606][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.607][ef$get] fields variable is a list.
biodb.INFO [2025-11-13 18:47:05.608][biodb::testThat]
biodb.INFO [2025-11-13 18:47:05.609][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-11-13 18:47:05.609][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-13 18:47:05.609][biodb::testThat]
biodb.TRACE[2025-11-13 18:47:05.617][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:05.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:05.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.619][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:05.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:05.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.620][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:05.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:05.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-13 18:47:05.644][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-13 18:47:05.646][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:05.647][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-13 18:47:05.647][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-11-13 18:47:05.658][biodb::testThat]
biodb.INFO [2025-11-13 18:47:05.659][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-11-13 18:47:05.659][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-13 18:47:05.660][biodb::testThat]
biodb.TRACE[2025-11-13 18:47:05.668][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:05.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:05.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.669][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:05.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:05.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.671][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.672][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.673][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.674][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.676][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-13 18:47:05.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-13 18:47:05.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.677][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-13 18:47:05.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-13 18:47:05.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.683][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-13 18:47:05.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-13 18:47:05.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.684][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-13 18:47:05.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-13 18:47:05.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.691][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:05.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:05.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.692][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:05.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:05.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.693][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.694][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:05.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.695][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.696][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:05.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.697][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-13 18:47:05.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-13 18:47:05.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.699][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-13 18:47:05.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-13 18:47:05.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.700][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-13 18:47:05.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-13 18:47:05.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:05.701][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-13 18:47:05.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-13 18:47:05.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:05.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-13 18:47:05.704][biodb::testThat]
biodb.INFO [2025-11-13 18:47:05.705][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-11-13 18:47:05.705][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-13 18:47:05.705][biodb::testThat]
biodb.INFO [2025-11-13 18:47:05.708][biodb::testThat]
biodb.INFO [2025-11-13 18:47:05.708][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-11-13 18:47:05.709][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-13 18:47:05.709][biodb::testThat]
biodb.INFO [2025-11-13 18:47:05.712][biodb::testThat]
biodb.INFO [2025-11-13 18:47:05.712][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-11-13 18:47:05.712][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-13 18:47:05.713][biodb::testThat]
biodb.DEBUG[2025-11-13 18:47:05.714][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-11-13 18:47:06.505][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-11-13 18:47:06.855][biodb::testThat]
biodb.INFO [2025-11-13 18:47:06.856][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-11-13 18:47:06.859][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-13 18:47:06.860][biodb::testThat]
biodb.TRACE[2025-11-13 18:47:06.862][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:06.863][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:06.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:06.864][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:06.864][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:06.864][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:06.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:06.865][ef$get] fields variable is a list.
biodb.INFO [2025-11-13 18:47:06.866][biodb::testThat]
biodb.INFO [2025-11-13 18:47:06.866][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-11-13 18:47:06.866][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-13 18:47:06.867][biodb::testThat]
biodb.TRACE[2025-11-13 18:47:06.871][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:06.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:06.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:06.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:06.872][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:06.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:06.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:06.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:06.873][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:06.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:06.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:06.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-13 18:47:06.912][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 [2025-11-13 18:47:06.913][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:06.914][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-13 18:47:06.914][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-13 18:47:06.952][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 [2025-11-13 18:47:06.953][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:06.954][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-13 18:47:06.955][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-11-13 18:47:06.960][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-13 18:47:06.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-13 18:47:06.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:06.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:06.963][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:06.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:06.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:06.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:06.964][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:06.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:06.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:06.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:06.965][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:06.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:06.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:06.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:06.966][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:06.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:06.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:06.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:06.967][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:06.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:06.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:06.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-13 18:47:06.971][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 [2025-11-13 18:47:06.972][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:06.973][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-13 18:47:06.974][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-13 18:47:06.975][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:06.975][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:06.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:06.978][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:06.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:06.978][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:06.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:06.979][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-11-13 18:47:06.999][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-13 18:47:07.000][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-13 18:47:07.001][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-11-13 18:47:07.002][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-13 18:47:07.002][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-13 18:47:07.002][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-13 18:47:07.003][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.003][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.006][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.006][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:07.007][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.007][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.008][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.009][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.010][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.010][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.011][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.012][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.012][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.013][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.013][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.014][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:07.015][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:07.015][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.015][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.016][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:07.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:07.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.017][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.017][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.018][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.018][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.019][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.020][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.020][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.020][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.021][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.021][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.022][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.022][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.023][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.024][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.027][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.028][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.029][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.029][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.029][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.030][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.031][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.031][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.032][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.033][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.034][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:07.034][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:07.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.035][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.035][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:07.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:07.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.037][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.041][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.047][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-11-13 18:47:07.050][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.052][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.053][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-13 18:47:07.054][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-13 18:47:07.055][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:07.056][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-13 18:47:07.056][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-13 18:47:07.065][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.066][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.068][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.069][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:07.070][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.071][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.073][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.074][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.074][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.077][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.077][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:07.078][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-11-13 18:47:07.078][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-13 18:47:07.079][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-13 18:47:07.081][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-11-13 18:47:07.081][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-13 18:47:07.081][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-13 18:47:07.082][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-13 18:47:07.083][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.083][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.083][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.085][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.086][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:07.087][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.087][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.088][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.090][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.090][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.091][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.091][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.092][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.093][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.093][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.094][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.095][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:07.095][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:07.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.096][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.097][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:07.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:07.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.098][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.098][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.099][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.099][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.103][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.103][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.104][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.105][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.105][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.105][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.106][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.107][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.107][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.108][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.109][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.110][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.110][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.111][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.113][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.113][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.114][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.114][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.119][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:07.119][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:07.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.120][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.120][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:07.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:07.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.121][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.122][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.124][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.130][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.132][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-11-13 18:47:07.132][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.133][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.135][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-13 18:47:07.145][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-13 18:47:07.146][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:07.147][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-13 18:47:07.148][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-13 18:47:07.149][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.149][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.149][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.151][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.152][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:07.152][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.154][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.155][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.156][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.157][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.159][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.159][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:07.160][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-11-13 18:47:07.160][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-13 18:47:07.161][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-13 18:47:07.162][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-11-13 18:47:07.163][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-13 18:47:07.163][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-13 18:47:07.164][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-13 18:47:07.164][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.165][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.167][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.168][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:07.169][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.170][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.170][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.172][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.172][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.173][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.173][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.174][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.174][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.175][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:07.175][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:07.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.176][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.176][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.176][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.177][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.177][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.178][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.178][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.179][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.179][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.179][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.180][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.180][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.180][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.184][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.184][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.185][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.185][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.186][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.187][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.187][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.188][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.188][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.190][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:07.190][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:07.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.190][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.191][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.193][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.202][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-11-13 18:47:07.203][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.204][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.205][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.206][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.208][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.209][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.209][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.211][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.211][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.212][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:07.212][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-11-13 18:47:07.213][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-13 18:47:07.213][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-13 18:47:07.216][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-11-13 18:47:07.217][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-13 18:47:07.217][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-13 18:47:07.217][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-13 18:47:07.218][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.218][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.219][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.224][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.225][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:07.226][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.227][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.227][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.229][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.230][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.230][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.231][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.231][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.234][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.234][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:07.235][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:07.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.235][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.236][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.236][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.237][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.237][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.238][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.238][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.239][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.239][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.239][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.240][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.240][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.241][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.241][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.241][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.242][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.243][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.244][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.245][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.245][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.246][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.247][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:07.247][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:07.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.248][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.250][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.269][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-11-13 18:47:07.269][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.270][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.271][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.273][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.274][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.275][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.275][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.275][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.277][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.278][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:07.278][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-11-13 18:47:07.279][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-13 18:47:07.279][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-13 18:47:07.281][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-11-13 18:47:07.281][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-13 18:47:07.282][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-13 18:47:07.282][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-13 18:47:07.283][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.283][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.285][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.285][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.286][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:07.287][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.287][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.288][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.290][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.290][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.291][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.291][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.291][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.292][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.292][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:07.293][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:07.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.293][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.294][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.294][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.294][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.295][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.295][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.296][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.296][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.296][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.297][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.297][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.297][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.298][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.298][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.299][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.299][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.300][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.301][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.301][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.302][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.302][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.314][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:07.314][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:07.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.315][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.316][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.317][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.320][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.329][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-11-13 18:47:07.329][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.331][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.332][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.334][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.335][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.336][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.337][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.337][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.339][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.340][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:07.341][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-11-13 18:47:07.341][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-13 18:47:07.341][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-13 18:47:07.344][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-11-13 18:47:07.344][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-13 18:47:07.345][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-13 18:47:07.345][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-13 18:47:07.346][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.346][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.348][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.349][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:07.350][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.350][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.351][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.353][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.353][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.356][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.357][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.358][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.358][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.359][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.359][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.361][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:07.361][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:07.361][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.361][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.362][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:07.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:07.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.363][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.363][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.364][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.364][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.366][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.366][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.367][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.367][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.368][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.368][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.369][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.369][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.370][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.371][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.371][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.373][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.373][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.373][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.374][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.375][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.375][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.376][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.376][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.377][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:07.378][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:07.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.378][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.379][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:07.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:07.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.380][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.396][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-11-13 18:47:07.396][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.398][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.399][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.400][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.401][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.403][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.404][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:07.411][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-11-13 18:47:07.412][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-13 18:47:07.412][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-13 18:47:07.415][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-11-13 18:47:07.415][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-13 18:47:07.416][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-13 18:47:07.416][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-13 18:47:07.416][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.417][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.417][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.419][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.420][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:07.421][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.421][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.422][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.424][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.424][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.424][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.425][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.426][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.426][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.427][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.427][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.428][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:07.429][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:07.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.429][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.430][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:07.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:07.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.431][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.431][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.432][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.432][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.433][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.433][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.433][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.434][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.434][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.435][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.438][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.439][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.439][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.440][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.441][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.441][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.442][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.442][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.444][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.444][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.444][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.445][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.446][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.446][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.447][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.447][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.448][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:07.449][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:07.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.449][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.450][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:07.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:07.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.452][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.454][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.463][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-11-13 18:47:07.463][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.464][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.466][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.467][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.467][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.470][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.471][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:07.471][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-11-13 18:47:07.472][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-13 18:47:07.472][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-13 18:47:07.477][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-11-13 18:47:07.477][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-13 18:47:07.478][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-13 18:47:07.479][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-13 18:47:07.479][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.480][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.482][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.483][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:07.484][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.485][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.485][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.487][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.487][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.488][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.488][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.490][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.490][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.490][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.491][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.492][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:07.492][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:07.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.493][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.493][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:07.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:07.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.494][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.494][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.495][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.495][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.496][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.497][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.497][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.498][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.498][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.498][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.499][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.500][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.500][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.501][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.501][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.502][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.502][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.503][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.503][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.504][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.505][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.505][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.505][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.507][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:07.507][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:07.507][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.507][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.508][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:07.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:07.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.509][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.523][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-11-13 18:47:07.524][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.525][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.526][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.527][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.527][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.530][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.531][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.531][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[2025-11-13 18:47:07.532][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-11-13 18:47:07.532][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-13 18:47:07.532][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-13 18:47:07.534][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-11-13 18:47:07.535][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-13 18:47:07.535][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-13 18:47:07.535][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-13 18:47:07.536][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.536][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.538][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.539][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:07.540][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.540][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.541][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.542][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.542][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.543][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.543][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.544][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.545][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.546][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.546][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.547][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:07.547][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:07.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.551][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.551][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:07.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:07.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.553][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.553][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.554][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.554][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.555][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.555][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.556][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.556][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.557][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.557][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.557][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.559][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.559][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.559][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.559][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.560][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.561][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.561][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.562][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.562][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.563][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.563][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.564][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.564][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.565][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:07.566][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:07.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.566][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.567][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:07.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:07.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.568][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.569][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.570][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.579][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-11-13 18:47:07.580][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.585][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.586][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.586][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.587][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.589][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:07.590][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-11-13 18:47:07.590][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-13 18:47:07.591][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-13 18:47:07.592][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-11-13 18:47:07.593][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-13 18:47:07.593][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-13 18:47:07.594][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-13 18:47:07.594][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.594][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.597][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.597][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:07.598][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.599][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.599][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.599][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.601][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.601][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.601][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.602][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.603][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.603][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.604][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.604][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.605][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:07.605][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:07.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.606][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.606][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:07.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:07.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.607][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.608][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.608][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.608][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.609][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.610][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.610][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.611][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.611][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.611][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.612][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.613][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.614][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.614][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.615][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.615][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.617][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.617][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.618][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.618][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.619][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.622][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.623][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.624][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.625][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:07.626][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:07.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.626][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.627][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:07.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:07.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.630][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.632][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.633][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.639][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.640][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-11-13 18:47:07.640][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.642][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.644][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.645][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.645][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.646][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.649][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:07.649][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-11-13 18:47:07.649][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-13 18:47:07.650][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-13 18:47:07.652][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-11-13 18:47:07.652][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-13 18:47:07.653][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-13 18:47:07.653][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-13 18:47:07.654][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.654][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.654][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.656][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.657][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:07.658][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.658][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.659][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.663][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.663][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.664][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.665][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.666][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.667][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.667][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.668][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.668][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.669][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:07.670][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:07.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.670][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.670][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:07.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:07.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.672][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.672][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.672][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.673][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.674][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.674][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.675][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.675][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.675][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.676][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.676][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.677][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.678][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.678][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.678][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.678][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.680][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.680][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.680][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.681][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.682][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.682][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.682][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.683][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.683][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.684][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:07.684][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:07.685][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.685][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.685][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:07.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:07.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.691][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.695][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.703][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-11-13 18:47:07.704][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.705][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.706][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.707][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.708][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.710][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.711][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:07.711][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-11-13 18:47:07.712][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-13 18:47:07.712][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-13 18:47:07.714][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-11-13 18:47:07.715][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-13 18:47:07.715][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-13 18:47:07.716][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-13 18:47:07.716][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.716][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.717][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.719][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.720][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:07.721][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.721][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.722][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.723][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.724][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.725][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.725][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.727][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.727][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.727][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.728][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.729][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:07.729][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:07.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.730][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.730][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:07.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:07.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.731][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.731][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.732][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.732][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.733][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.734][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.734][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.735][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.735][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.735][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.736][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.740][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.740][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.741][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.741][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.742][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.743][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.743][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.743][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.744][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.745][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.745][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.745][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.746][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.747][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:07.747][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:07.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.748][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.748][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:07.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:07.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.749][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.755][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.760][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-11-13 18:47:07.761][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.762][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.764][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.765][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.765][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.765][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.768][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.769][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[2025-11-13 18:47:07.769][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-11-13 18:47:07.770][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-13 18:47:07.770][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-13 18:47:07.771][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-11-13 18:47:07.772][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-13 18:47:07.772][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-13 18:47:07.775][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-13 18:47:07.776][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.777][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.777][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.779][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.780][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:07.781][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.782][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.782][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.784][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.785][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.785][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.785][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.787][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.787][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.788][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.788][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.789][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:07.789][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:07.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.790][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.790][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.790][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.791][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.791][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.792][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.792][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.792][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.793][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.793][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.794][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.795][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.795][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.795][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.796][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.797][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.797][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.798][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.798][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.800][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.800][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.801][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.801][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.803][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:07.803][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:07.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.803][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.804][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.808][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.819][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-11-13 18:47:07.819][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.820][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.821][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.822][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.822][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.825][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.825][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:07.826][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-11-13 18:47:07.826][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-13 18:47:07.827][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-13 18:47:07.829][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-11-13 18:47:07.830][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-13 18:47:07.830][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-13 18:47:07.830][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-13 18:47:07.831][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.831][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.831][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.833][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.834][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:07.835][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.835][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.836][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.837][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.838][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.838][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.839][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.840][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.841][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.841][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.841][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.842][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.843][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:07.843][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:07.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.844][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.844][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.845][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.845][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.846][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.846][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.847][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.847][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.847][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.848][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.851][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.853][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.853][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.854][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.856][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.856][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.856][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.857][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.857][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.858][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.859][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.859][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.860][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.861][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:07.861][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:07.861][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.861][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.862][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.863][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.866][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.874][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.875][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-11-13 18:47:07.876][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.877][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.878][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.879][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.879][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.879][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.881][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.883][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[2025-11-13 18:47:07.883][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-11-13 18:47:07.883][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-13 18:47:07.884][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-13 18:47:07.886][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-11-13 18:47:07.886][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-13 18:47:07.887][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-13 18:47:07.887][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-13 18:47:07.890][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.891][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.894][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.894][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.894][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.TRACE[2025-11-13 18:47:07.895][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.896][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.896][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.898][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.898][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.899][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.899][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.901][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.901][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.901][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.902][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.903][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:07.904][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:07.904][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.904][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.905][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:07.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:07.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.907][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.908][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.908][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.909][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.910][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.910][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.911][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.911][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.911][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.912][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.912][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.913][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.914][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.914][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.914][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.916][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.919][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.919][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.920][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.922][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.922][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.922][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.923][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.923][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.924][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:07.924][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:07.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.925][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.925][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:07.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:07.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.927][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.936][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.937][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.942][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-11-13 18:47:07.942][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.947][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:07.948][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.948][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.948][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.950][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.951][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:07.951][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-11-13 18:47:07.952][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-13 18:47:07.952][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-13 18:47:07.954][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-11-13 18:47:07.955][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-13 18:47:07.955][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-13 18:47:07.956][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-13 18:47:07.956][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:07.956][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:07.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:07.958][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:07.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:07.959][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:07.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:07.960][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.960][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.961][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.963][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.963][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.963][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.964][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:07.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:07.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.965][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.965][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.966][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.966][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:07.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:07.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.967][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:07.967][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:07.968][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.968][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.968][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:07.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:07.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.973][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.973][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.974][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.974][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:07.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.976][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.976][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:07.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.977][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.977][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.977][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.978][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.978][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:07.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:07.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.979][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.980][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.980][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.980][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:07.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.982][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.982][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.982][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.983][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:07.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:07.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.984][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.984][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.985][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.985][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:07.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:07.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.986][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:07.986][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:07.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.987][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.987][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:07.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:07.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.989][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.993][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:07.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.995][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:07.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:07.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:07.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:07.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.001][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-11-13 18:47:08.002][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.003][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.007][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.008][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.009][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.011][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.012][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:08.012][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-11-13 18:47:08.013][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-13 18:47:08.013][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-13 18:47:08.015][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-11-13 18:47:08.015][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-13 18:47:08.016][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-13 18:47:08.016][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-13 18:47:08.016][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.017][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.019][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.020][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.021][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.021][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.023][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:08.023][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:08.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.024][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.024][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:08.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:08.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.025][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:08.026][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:08.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.026][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.026][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:08.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:08.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.027][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:08.028][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:08.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.028][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.029][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:08.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:08.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.030][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:08.030][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:08.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.031][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.031][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:08.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:08.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.033][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:08.033][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:08.033][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.033][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.034][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:08.034][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.034][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.035][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:08.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.036][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.036][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.037][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.038][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:08.039][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:08.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.039][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.040][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:08.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:08.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.044][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:08.044][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:08.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.045][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.046][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:08.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:08.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.047][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:08.047][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:08.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.048][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.048][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:08.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:08.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.050][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.054][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.061][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.065][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-11-13 18:47:08.065][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.069][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.069][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.070][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.072][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:08.073][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-11-13 18:47:08.074][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-13 18:47:08.074][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-13 18:47:08.076][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-11-13 18:47:08.076][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-13 18:47:08.077][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-13 18:47:08.077][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-13 18:47:08.078][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.078][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.078][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.080][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.081][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.082][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.083][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.083][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.088][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:08.089][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:08.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.089][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.089][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:08.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:08.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.091][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:08.091][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:08.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.092][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.092][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:08.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:08.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.094][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:08.094][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:08.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.095][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.095][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:08.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:08.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.096][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:08.097][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:08.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.097][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.097][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:08.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:08.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.099][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:08.099][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:08.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.099][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.100][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:08.100][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.101][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.101][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:08.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.102][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.102][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.103][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.103][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.104][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:08.105][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:08.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.105][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.106][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:08.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:08.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.107][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:08.107][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:08.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.107][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.108][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:08.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:08.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.109][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:08.109][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:08.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.110][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.110][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:08.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:08.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.111][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.112][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.128][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-11-13 18:47:08.128][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.130][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.131][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.132][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.134][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.135][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:08.136][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-11-13 18:47:08.136][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-13 18:47:08.137][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-13 18:47:08.139][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-11-13 18:47:08.139][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-13 18:47:08.139][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-13 18:47:08.140][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-13 18:47:08.140][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.141][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.143][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.144][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.145][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.146][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.146][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.149][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:08.149][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:08.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.150][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.150][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:08.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:08.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.151][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:08.152][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:08.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.152][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.153][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:08.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:08.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.154][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:08.155][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:08.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.155][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.156][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:08.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:08.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.157][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:08.157][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:08.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.158][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.158][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:08.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:08.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.159][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:08.160][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:08.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.160][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.161][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:08.161][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.165][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.166][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:08.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.167][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.168][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.168][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.169][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.170][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:08.170][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:08.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.171][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.171][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:08.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:08.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.172][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:08.173][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:08.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.173][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.174][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:08.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:08.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.175][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:08.175][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:08.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.175][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.176][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:08.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:08.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.177][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.178][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.180][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.188][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-11-13 18:47:08.188][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.194][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.195][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.195][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.198][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.198][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:08.199][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-11-13 18:47:08.199][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-13 18:47:08.200][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-13 18:47:08.205][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-11-13 18:47:08.206][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-13 18:47:08.207][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-13 18:47:08.207][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-13 18:47:08.208][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.209][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.212][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.212][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.214][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.214][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.215][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.217][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:08.217][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:08.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.217][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.218][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:08.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:08.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.220][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:08.220][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:08.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.221][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.221][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:08.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:08.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.222][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:08.223][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:08.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.223][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.224][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:08.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:08.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.225][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:08.225][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:08.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.226][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.226][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:08.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:08.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.228][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:08.228][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:08.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.229][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.229][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:08.229][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.230][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.230][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:08.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.232][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.232][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.232][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.232][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.233][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.234][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:08.234][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:08.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.235][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.235][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:08.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:08.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.236][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:08.237][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:08.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.237][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.238][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:08.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:08.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.239][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:08.239][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:08.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.240][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.240][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:08.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:08.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.241][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.246][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.258][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-11-13 18:47:08.258][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.259][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.260][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.262][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.262][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.262][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.264][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.265][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.265][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.DEBUG[2025-11-13 18:47:08.265][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-11-13 18:47:08.266][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-13 18:47:08.266][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-13 18:47:08.268][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-11-13 18:47:08.268][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-13 18:47:08.268][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-13 18:47:08.269][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-13 18:47:08.269][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.270][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.270][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.272][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.272][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.273][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.273][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.274][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.275][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:08.276][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:08.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.276][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.277][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:08.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:08.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.278][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:08.278][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:08.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.279][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.279][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:08.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:08.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.282][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:08.283][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:08.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.284][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.284][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:08.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:08.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.285][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:08.286][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:08.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.286][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.287][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:08.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:08.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.288][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:08.288][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:08.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.289][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.289][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:08.289][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.290][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.290][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:08.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.291][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.291][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.292][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.292][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.293][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:08.294][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:08.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.294][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.294][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:08.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:08.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.296][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:08.296][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:08.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.297][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.305][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:08.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:08.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.306][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:08.307][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:08.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.307][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.308][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:08.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:08.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.309][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.310][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.312][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.320][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-11-13 18:47:08.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.326][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-13 18:47:08.334][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-13 18:47:08.335][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:08.336][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-13 18:47:08.337][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-13 18:47:08.338][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.338][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.340][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.341][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.341][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.342][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.343][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.345][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.345][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.347][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.348][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.348][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.350][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.351][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.353][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.354][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.355][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.356][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.359][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.360][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.361][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.363][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.367][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.369][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.371][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.371][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.371][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.373][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.374][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.375][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.376][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.381][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.382][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.383][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.384][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.385][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.387][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.387][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.388][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.389][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.391][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.392][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.393][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.395][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.395][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.396][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.397][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.398][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.399][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.399][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.401][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.402][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.403][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.404][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.405][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.409][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.409][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.416][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.417][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.417][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.419][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.420][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.421][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.421][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.421][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.423][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.424][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.424][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.425][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.426][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.427][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.429][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.429][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.429][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.431][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.432][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.433][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.436][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.437][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.437][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.438][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.440][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.441][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.441][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.443][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.445][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.446][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.446][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.448][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.449][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.449][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.451][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.455][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.457][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.458][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.458][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.460][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.461][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.461][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.463][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.464][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.465][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.465][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.467][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.468][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.469][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.470][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.471][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.472][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.472][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.475][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.475][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.476][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.477][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.478][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.479][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.479][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.482][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.482][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.483][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.484][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.485][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.486][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.486][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.487][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.489][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.489][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.490][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.495][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.496][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.497][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.498][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.500][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.501][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.502][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.503][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.505][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.506][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.506][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.509][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.510][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.511][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.512][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.514][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.515][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.515][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.518][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.519][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.519][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.521][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.530][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.531][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.533][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.540][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-13 18:47:08.550][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-13 18:47:08.551][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:08.552][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-11-13 18:47:08.553][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-13 18:47:08.554][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-13 18:47:08.555][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:08.556][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-11-13 18:47:08.557][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-13 18:47:08.558][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.558][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.561][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.561][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:08.562][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-11-13 18:47:08.562][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-13 18:47:08.563][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-13 18:47:08.565][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-11-13 18:47:08.565][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-13 18:47:08.566][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-13 18:47:08.566][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-13 18:47:08.567][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.569][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.570][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.571][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.572][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.572][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.574][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:08.574][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:08.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.575][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.575][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:08.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:08.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.576][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:08.577][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:08.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.577][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.578][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:08.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:08.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.582][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:08.583][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:08.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.584][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.585][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:08.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:08.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.586][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:08.587][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:08.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.587][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.588][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:08.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:08.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.589][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:08.590][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:08.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.590][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.591][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:08.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:08.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.592][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:08.592][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.593][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.594][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:08.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.595][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.595][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.596][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.596][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.598][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:08.598][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:08.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.599][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.599][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:08.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:08.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.601][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:08.601][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:08.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.602][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.602][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:08.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:08.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.604][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:08.604][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:08.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.605][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.605][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:08.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:08.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.610][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.613][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.625][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-11-13 18:47:08.625][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.627][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.629][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.630][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.633][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.634][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.634][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.636][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.637][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.638][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.638][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:08.641][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-11-13 18:47:08.641][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-13 18:47:08.642][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-13 18:47:08.643][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-11-13 18:47:08.644][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-13 18:47:08.644][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-13 18:47:08.644][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-13 18:47:08.645][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.645][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.647][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.648][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.649][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.649][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.650][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.650][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.651][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:08.652][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:08.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.652][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.653][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:08.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:08.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.654][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:08.654][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:08.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.655][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.655][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:08.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:08.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.656][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:08.656][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:08.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.657][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.657][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:08.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:08.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.658][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:08.659][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:08.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.659][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.663][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:08.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:08.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.665][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:08.665][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:08.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.666][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.666][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:08.667][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.667][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.667][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.668][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:08.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:08.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.669][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.670][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.670][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.671][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.672][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:08.672][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:08.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.673][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.673][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:08.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:08.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.675][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:08.675][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:08.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.676][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.676][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:08.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:08.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.677][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:08.678][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:08.678][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.678][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.679][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:08.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:08.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.680][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.683][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:08.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:08.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:08.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.692][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-11-13 18:47:08.692][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.693][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.694][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-13 18:47:08.705][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-13 18:47:08.707][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:08.708][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-13 18:47:08.708][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-13 18:47:08.709][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.709][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.710][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.711][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.712][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.713][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.714][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.715][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.716][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.716][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.718][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.719][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.720][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.721][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.722][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.724][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.726][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.726][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.729][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.729][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.730][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.732][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.733][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.734][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.739][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.739][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.740][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.742][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.743][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.744][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.745][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.746][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.748][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.750][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.750][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.752][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.752][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.753][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.755][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.757][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.758][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.759][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.761][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.762][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.764][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.765][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.766][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.766][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.767][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.769][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.769][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.770][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.772][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.775][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.776][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.776][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.782][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.784][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.787][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.787][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.787][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.789][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.790][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.790][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.792][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.793][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.794][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.794][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.796][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.797][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.800][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.801][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.801][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.803][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.803][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.804][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.805][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.806][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.808][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.808][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.810][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.811][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.812][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.814][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.815][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.815][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.821][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.822][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.823][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.826][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.827][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.828][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.831][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.832][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.833][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.834][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.835][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.836][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.836][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.841][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.842][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.844][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.845][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.846][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.847][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.849][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.850][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.851][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.853][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.854][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.854][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.856][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.857][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.857][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.863][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.864][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.867][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.867][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.868][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.869][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.870][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.872][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.872][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.875][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.876][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.877][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.878][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.880][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.880][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.881][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.883][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.884][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.884][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.887][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-13 18:47:08.896][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-13 18:47:08.897][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:08.899][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-13 18:47:08.899][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-13 18:47:08.901][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.901][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.905][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.906][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.909][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.912][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.914][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.915][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.917][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.918][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.919][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.920][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.922][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.923][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.925][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.925][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.925][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.927][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.928][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.928][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.930][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.931][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.932][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.934][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.934][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.937][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.937][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.938][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.939][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.942][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.943][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.947][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.950][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.950][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.951][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.953][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.955][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.955][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.957][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.959][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.960][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.961][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.961][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.963][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.964][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.968][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.968][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.970][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.971][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.971][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.972][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:08.975][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:08.975][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:08.975][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:08.977][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:08.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:08.978][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:08.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:08.978][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:08.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:08.980][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:08.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.077][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.078][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.079][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.081][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.082][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.085][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.086][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.088][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.090][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.091][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.094][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.097][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.097][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.099][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.100][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.100][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.102][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.103][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.104][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.106][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.106][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.109][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.110][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.111][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.111][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.113][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.114][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.114][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.115][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.116][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.118][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.118][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.118][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.120][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.120][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.121][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.122][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.123][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.124][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.125][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.125][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.127][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.128][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.129][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.132][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.133][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.133][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.134][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.136][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.137][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.137][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.139][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.141][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.142][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.142][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.143][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.145][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.145][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.146][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.147][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.149][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.150][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.151][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.153][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.154][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.156][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.157][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.158][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.158][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.161][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.161][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.163][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.164][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.171][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-13 18:47:09.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-13 18:47:09.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-13 18:47:09.175][biodb::testThat]
biodb.INFO [2025-11-13 18:47:09.175][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-11-13 18:47:09.175][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-13 18:47:09.176][biodb::testThat]
biodb.TRACE[2025-11-13 18:47:09.177][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-13 18:47:09.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-13 18:47:09.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.178][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.179][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.180][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.182][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.185][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.185][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.188][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-13 18:47:09.189][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-13 18:47:09.190][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:09.191][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-13 18:47:09.191][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-13 18:47:09.192][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.193][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.195][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.198][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.199][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.200][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.201][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-13 18:47:09.202][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-13 18:47:09.203][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:09.208][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-13 18:47:09.209][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-13 18:47:09.210][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.210][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.213][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.214][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.215][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.216][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.217][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.219][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.219][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.219][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.222][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.222][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.223][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.224][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.225][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.226][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-13 18:47:09.227][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.227][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.228][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.229][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.230][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.232][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.233][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.233][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-13 18:47:09.234][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-13 18:47:09.234][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-13 18:47:09.234][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.234][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.235][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.235][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.235][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.236][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.236][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.236][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.237][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.237][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.237][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.238][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.238][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-13 18:47:09.238][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.239][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.240][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.245][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-11-13 18:47:09.245][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.247][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.248][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.248][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.251][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.251][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-13 18:47:09.251][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-13 18:47:09.251][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-13 18:47:09.252][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.252][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.252][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.253][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.253][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.253][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.255][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.255][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.255][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.256][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.256][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.256][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.257][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-13 18:47:09.257][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.258][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.259][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.260][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-13 18:47:09.261][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.261][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.261][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.263][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.264][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.264][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.265][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.267][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.267][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-13 18:47:09.267][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-13 18:47:09.267][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-13 18:47:09.268][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.268][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.268][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.269][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.269][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.269][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.270][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.270][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.270][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.270][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.271][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.271][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.271][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-13 18:47:09.272][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.273][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.274][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.275][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-11-13 18:47:09.275][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-13 18:47:09.276][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-13 18:47:09.280][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.308][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.308][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.310][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.311][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-13 18:47:09.312][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-13 18:47:09.313][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:09.314][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-11-13 18:47:09.315][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-13 18:47:09.316][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-13 18:47:09.317][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:09.318][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-11-13 18:47:09.319][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-13 18:47:09.319][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.320][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.322][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.322][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.322][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.323][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.324][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.325][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.326][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.326][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.328][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.329][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.329][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.329][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.332][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.333][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.333][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.335][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.336][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.337][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.338][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.347][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-13 18:47:09.356][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.357][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.359][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.360][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.363][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.364][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-13 18:47:09.364][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-13 18:47:09.364][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-13 18:47:09.365][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.365][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.365][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.366][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.366][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.367][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.367][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.371][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.372][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.372][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.372][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.373][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.373][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-13 18:47:09.374][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.375][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.376][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.378][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-11-13 18:47:09.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.378][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.381][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.381][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.386][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.396][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.397][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-13 18:47:09.397][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-13 18:47:09.398][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-13 18:47:09.398][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.398][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.399][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.399][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.399][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.400][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.400][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.400][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.404][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.404][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.405][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.405][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.405][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-13 18:47:09.406][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.407][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.408][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.409][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-13 18:47:09.409][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.410][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.413][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.416][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.417][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.418][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.419][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-13 18:47:09.419][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-13 18:47:09.419][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-13 18:47:09.419][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.420][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.420][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.420][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.421][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.421][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.421][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.422][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.422][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.422][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.423][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.423][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.423][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-13 18:47:09.424][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.426][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.427][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-11-13 18:47:09.427][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-13 18:47:09.428][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-13 18:47:09.432][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-13 18:47:09.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-13 18:47:09.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-13 18:47:09.435][biodb::testThat]
biodb.INFO [2025-11-13 18:47:09.435][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-11-13 18:47:09.435][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-13 18:47:09.436][biodb::testThat]
biodb.TRACE[2025-11-13 18:47:09.437][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-13 18:47:09.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-13 18:47:09.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.438][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.441][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.442][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.445][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.445][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.445][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.447][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.448][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-13 18:47:09.449][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-13 18:47:09.450][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:09.451][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-13 18:47:09.451][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-13 18:47:09.453][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.453][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.455][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.456][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.457][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.458][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.459][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-13 18:47:09.460][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-13 18:47:09.461][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:09.462][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-13 18:47:09.462][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-13 18:47:09.463][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.463][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.465][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.466][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.467][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.468][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.469][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.470][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.471][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.471][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.473][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.473][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.474][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.475][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.476][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.477][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-13 18:47:09.478][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.478][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.478][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.480][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.481][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.481][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.484][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.484][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-13 18:47:09.484][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-13 18:47:09.484][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-13 18:47:09.485][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.485][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.485][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.486][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.486][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.486][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.487][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.487][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.487][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.488][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.488][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.488][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.489][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-13 18:47:09.489][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.491][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.492][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-11-13 18:47:09.493][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.493][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.493][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.495][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.496][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.497][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.498][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.499][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-13 18:47:09.499][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-13 18:47:09.499][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-13 18:47:09.499][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.500][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.500][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.501][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.501][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.501][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.502][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.502][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.502][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.502][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.503][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.503][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.503][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-13 18:47:09.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.505][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.507][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-13 18:47:09.507][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.508][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.510][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.510][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.511][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.513][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.513][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-13 18:47:09.514][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-13 18:47:09.514][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-13 18:47:09.514][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.514][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.515][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.515][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.516][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.516][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.516][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.517][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.517][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.517][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.517][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.518][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.518][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.518][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-13 18:47:09.518][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.522][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.524][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-11-13 18:47:09.525][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-13 18:47:09.525][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-13 18:47:09.528][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.530][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.531][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.534][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.535][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.535][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.537][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.538][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-13 18:47:09.539][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-13 18:47:09.540][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:09.541][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-11-13 18:47:09.541][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-13 18:47:09.542][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-13 18:47:09.543][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:09.544][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-11-13 18:47:09.544][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-13 18:47:09.545][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.545][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.548][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.548][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.549][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.550][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.551][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.552][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.552][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.555][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.555][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.556][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.558][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.559][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.559][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.561][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.562][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.563][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.564][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.566][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-13 18:47:09.566][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.569][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.569][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.570][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.572][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.572][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-13 18:47:09.572][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-13 18:47:09.573][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-13 18:47:09.573][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.573][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.573][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.574][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.574][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.575][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.575][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.575][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.576][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.576][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.576][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.577][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.577][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-13 18:47:09.577][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.578][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.580][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-11-13 18:47:09.581][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.581][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.583][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.584][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.584][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[2025-11-13 18:47:09.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.585][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.586][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.587][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-13 18:47:09.587][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-13 18:47:09.587][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-13 18:47:09.587][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.588][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.588][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.588][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.588][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.589][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.589][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.590][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.591][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.591][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.591][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.592][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.592][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.593][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-13 18:47:09.593][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.595][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.596][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.597][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-13 18:47:09.598][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.598][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.606][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.607][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.611][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.611][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-13 18:47:09.611][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-13 18:47:09.612][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-13 18:47:09.612][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.612][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.612][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.613][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.613][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.614][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.614][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.615][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.615][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.615][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.615][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.616][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.616][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-13 18:47:09.617][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.618][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.620][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-11-13 18:47:09.621][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-13 18:47:09.621][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-13 18:47:09.624][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-13 18:47:09.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-13 18:47:09.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-13 18:47:09.627][biodb::testThat]
biodb.INFO [2025-11-13 18:47:09.627][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-11-13 18:47:09.628][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-13 18:47:09.628][biodb::testThat]
biodb.TRACE[2025-11-13 18:47:09.629][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-13 18:47:09.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-13 18:47:09.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.630][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.631][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.634][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.639][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.639][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.641][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.642][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-13 18:47:09.643][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-13 18:47:09.644][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:09.644][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-13 18:47:09.645][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-13 18:47:09.645][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.646][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.646][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.647][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.648][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.649][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.651][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-13 18:47:09.652][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-13 18:47:09.653][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:09.654][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-13 18:47:09.654][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-13 18:47:09.655][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.655][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.660][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.664][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.665][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.666][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.667][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.668][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.668][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.674][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.675][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.675][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.676][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.677][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.679][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-13 18:47:09.679][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.680][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.682][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.683][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.685][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.686][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.687][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-13 18:47:09.687][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-13 18:47:09.687][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-13 18:47:09.688][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.688][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.688][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.689][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.689][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.690][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.690][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.691][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.691][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.691][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.692][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.692][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.692][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-13 18:47:09.693][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.697][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.698][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-11-13 18:47:09.699][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.699][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.701][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.702][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.702][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.TRACE[2025-11-13 18:47:09.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.706][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.706][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-13 18:47:09.706][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-13 18:47:09.706][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-13 18:47:09.707][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.707][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.707][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.708][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.708][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.708][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.709][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.709][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.709][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.710][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.710][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.710][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.711][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-13 18:47:09.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.712][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.715][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-13 18:47:09.715][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.715][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.717][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.718][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.720][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.721][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.721][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-13 18:47:09.721][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-13 18:47:09.722][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-13 18:47:09.722][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.722][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.724][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.724][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.725][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.725][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.725][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.726][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.726][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.726][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.727][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.727][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.727][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-13 18:47:09.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.730][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.731][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-11-13 18:47:09.731][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-13 18:47:09.731][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-13 18:47:09.738][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.739][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.741][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.743][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.744][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.746][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.746][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-13 18:47:09.747][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-13 18:47:09.748][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:09.749][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-11-13 18:47:09.749][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-13 18:47:09.750][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-13 18:47:09.751][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:09.751][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-11-13 18:47:09.752][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-13 18:47:09.753][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.753][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.758][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.759][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.760][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.761][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.763][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.764][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.764][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.765][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.767][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.767][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.772][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.774][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.775][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.777][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.777][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.777][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.779][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.780][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.780][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.782][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.784][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-13 18:47:09.785][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.785][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.787][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.789][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.790][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.791][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-13 18:47:09.791][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-13 18:47:09.791][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-13 18:47:09.791][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.792][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.792][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.792][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.793][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.793][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.793][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.794][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.794][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.794][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.794][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.795][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.795][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-13 18:47:09.795][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.796][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.799][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-11-13 18:47:09.799][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.799][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.801][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.802][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.803][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.804][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.805][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-13 18:47:09.805][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-13 18:47:09.805][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-13 18:47:09.805][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.806][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.806][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.806][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.807][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.807][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.808][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.808][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.808][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.808][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.809][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.809][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.809][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-13 18:47:09.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.811][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.812][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.813][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-13 18:47:09.813][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.815][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.816][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.816][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.819][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.819][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-13 18:47:09.819][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-13 18:47:09.821][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-13 18:47:09.821][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.822][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.822][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.823][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.823][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.823][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.823][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.824][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.824][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.824][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-13 18:47:09.825][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.825][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.825][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.826][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-13 18:47:09.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.829][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-11-13 18:47:09.829][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-13 18:47:09.830][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-13 18:47:09.837][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-13 18:47:09.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-13 18:47:09.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-13 18:47:09.839][biodb::testThat]
biodb.INFO [2025-11-13 18:47:09.840][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-11-13 18:47:09.840][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-13 18:47:09.840][biodb::testThat]
biodb.DEBUG[2025-11-13 18:47:09.841][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-11-13 18:47:09.841][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-13 18:47:09.842][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-13 18:47:09.843][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-11-13 18:47:09.843][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-13 18:47:09.844][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-13 18:47:09.844][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-13 18:47:09.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.845][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.847][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.848][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.849][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:09.850][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:09.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.850][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:09.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:09.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.852][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:09.852][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:09.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.854][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.855][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:09.855][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:09.856][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.856][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.856][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:09.857][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:09.857][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.857][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.858][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:09.858][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:09.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.858][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.859][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:09.859][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:09.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.860][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.860][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:09.860][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.861][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.861][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.861][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.862][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.862][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.863][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:09.863][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:09.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.863][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.864][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:09.865][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:09.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.865][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.866][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:09.866][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:09.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.867][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.871][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:09.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:09.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.874][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:09.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:09.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:09.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:09.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:09.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:09.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:09.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:09.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.881][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:09.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:09.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:09.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:09.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.883][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-11-13 18:47:09.883][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-11-13 18:47:09.887][biodb::testThat]
biodb.INFO [2025-11-13 18:47:09.887][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-11-13 18:47:09.887][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-13 18:47:09.887][biodb::testThat]
biodb.DEBUG[2025-11-13 18:47:09.891][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-11-13 18:47:09.891][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-11-13 18:47:09.891][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-11-13 18:47:09.892][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-13 18:47:09.893][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-11-13 18:47:09.894][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-11-13 18:47:09.896][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-11-13 18:47:09.896][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-13 18:47:09.897][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-11-13 18:47:09.897][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-11-13 18:47:09.897][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.898][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.900][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.900][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.901][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:09.902][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:09.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.902][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:09.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:09.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.904][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:09.904][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:09.904][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.905][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.905][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:09.905][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:09.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.906][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.906][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:09.906][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:09.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.907][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.907][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:09.907][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:09.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.908][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.908][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:09.908][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:09.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.909][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.909][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:09.910][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.910][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.910][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.911][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.911][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.911][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:09.912][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:09.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.912][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.913][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:09.913][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:09.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.914][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.914][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:09.914][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:09.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.916][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.920][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:09.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:09.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.921][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.922][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:09.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:09.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:09.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:09.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.925][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:09.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:09.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.926][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.927][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.930][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.930][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.932][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:09.932][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:09.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.933][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:09.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:09.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.934][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:09.935][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:09.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.935][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.936][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:09.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:09.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.937][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:09.938][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:09.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.938][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.939][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:09.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:09.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.940][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:09.940][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:09.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.941][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.941][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:09.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:09.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.942][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:09.943][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:09.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.943][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.943][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:09.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:09.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.945][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:09.945][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:09.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.945][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.946][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:09.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:09.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.947][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:09.947][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.948][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.948][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:09.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.949][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.949][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.950][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.950][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.951][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:09.952][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:09.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.952][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.953][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:09.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:09.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.954][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:09.954][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:09.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.955][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.955][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:09.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:09.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.956][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:09.956][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:09.956][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.957][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.957][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:09.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:09.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.959][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:09.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:09.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.961][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:09.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:09.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:09.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:09.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:09.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:09.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:09.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:09.966][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:09.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:09.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:09.972][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:09.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:09.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:09.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:09.974][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:09.974][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:09.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.975][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:09.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:09.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.976][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:09.977][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:09.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.977][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.978][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:09.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:09.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.979][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:09.979][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:09.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.979][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.980][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:09.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:09.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.984][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:09.985][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:09.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.985][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.986][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:09.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:09.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.987][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:09.987][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:09.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.988][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.988][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:09.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:09.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.990][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:09.990][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:09.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.991][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.991][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:09.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:09.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.993][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:09.993][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.994][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.994][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:09.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:09.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.995][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.996][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.996][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.996][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:09.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.998][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:09.998][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:09.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:09.998][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:09.999][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:09.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:09.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.000][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:10.000][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:10.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.003][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.003][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:10.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:10.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.005][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:10.005][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:10.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.006][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.006][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:10.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:10.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.008][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:10.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:10.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:10.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:10.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:10.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:10.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:10.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:10.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:10.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:10.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:10.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:10.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:10.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:10.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:10.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:10.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.018][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:10.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:10.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:10.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:10.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:10.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:10.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:10.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:10.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:10.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:10.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:10.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:10.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:10.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:10.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:10.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:10.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:10.027][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-11-13 18:47:10.027][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-11-13 18:47:10.027][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-11-13 18:47:10.033][biodb::testThat]
biodb.INFO [2025-11-13 18:47:10.033][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-11-13 18:47:10.033][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-13 18:47:10.033][biodb::testThat]
biodb.INFO [2025-11-13 18:47:10.043][biodb::testThat]
biodb.INFO [2025-11-13 18:47:10.044][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-11-13 18:47:10.044][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-13 18:47:10.044][biodb::testThat]
biodb.INFO [2025-11-13 18:47:10.047][biodb::testThat]
biodb.INFO [2025-11-13 18:47:10.048][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-11-13 18:47:10.048][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-13 18:47:10.048][biodb::testThat]
sched.DEBUG[2025-11-13 18:47:10.049][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-11-13 18:47:10.050][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:10.053][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-11-13 18:47:10.053][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-11-13 18:47:10.058][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:10.058][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:10.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.059][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.059][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:10.059][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:10.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.060][ef$get] fields variable is a list.
biodb.INFO [2025-11-13 18:47:10.060][biodb::testThat]
biodb.INFO [2025-11-13 18:47:10.061][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-11-13 18:47:10.061][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-13 18:47:10.061][biodb::testThat]
biodb.ERROR[2025-11-13 18:47:10.066][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-11-13 18:47:10.072][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-11-13 18:47:10.078][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-13 18:47:10.078][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-13 18:47:10.078][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-13 18:47:10.079][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.079][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.080][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-13 18:47:10.087][biodb::testContext]
biodb.INFO [2025-11-13 18:47:10.088][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-13 18:47:10.088][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-11-13 18:47:10.089][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-13 18:47:10.089][biodb::testContext]
biodb.INFO [2025-11-13 18:47:10.090][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.19.0.
biodb.DEBUG[2025-11-13 18:47:10.091][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-11-13 18:47:10.093][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-13 18:47:10.093][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-13 18:47:10.102][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-13 18:47:10.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.103][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.DEBUG[2025-11-13 18:47:10.103][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-13 18:47:10.104][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-13 18:47:10.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.105][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-13 18:47:10.105][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-13 18:47:10.106][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.106][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-13 18:47:10.107][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-13 18:47:10.107][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-13 18:47:10.107][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.108][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-13 18:47:10.108][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-13 18:47:10.109][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-13 18:47:10.109][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.110][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-13 18:47:10.110][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-13 18:47:10.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.111][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-13 18:47:10.114][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-13 18:47:10.114][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-13 18:47:10.115][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.115][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-13 18:47:10.116][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-13 18:47:10.116][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.116][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-13 18:47:10.117][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-13 18:47:10.117][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-13 18:47:10.117][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.118][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-13 18:47:10.118][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-13 18:47:10.118][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-13 18:47:10.119][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-13 18:47:10.119][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-13 18:47:10.119][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-13 18:47:10.120][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.120][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-13 18:47:10.121][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-13 18:47:10.121][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.122][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-13 18:47:10.122][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-13 18:47:10.122][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.123][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-13 18:47:10.124][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-13 18:47:10.124][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.124][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[2025-11-13 18:47:10.125][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-13 18:47:10.125][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-13 18:47:10.125][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-13 18:47:10.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.126][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-13 18:47:10.126][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-13 18:47:10.132][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-13 18:47:10.132][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.133][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-13 18:47:10.133][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-13 18:47:10.134][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-13 18:47:10.134][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.135][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-13 18:47:10.135][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.136][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-11-13 18:47:10.136][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.136][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-13 18:47:10.136][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.137][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.137][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.137][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.138][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-13 18:47:10.138][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-13 18:47:10.138][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.138][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-13 18:47:10.139][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-13 18:47:10.139][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.139][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.139][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-13 18:47:10.139][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-13 18:47:10.139][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-13 18:47:10.139][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-13 18:47:10.139][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-13 18:47:10.140][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-13 18:47:10.140][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.140][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.140][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-13 18:47:10.141][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.141][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.141][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.141][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.142][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-13 18:47:10.142][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-13 18:47:10.142][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.142][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.143][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-13 18:47:10.143][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.144][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-13 18:47:10.144][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.144][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-13 18:47:10.144][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.145][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.145][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.145][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.145][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-13 18:47:10.146][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-13 18:47:10.146][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.146][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-13 18:47:10.147][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-13 18:47:10.148][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.149][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.149][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-13 18:47:10.149][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-13 18:47:10.149][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-13 18:47:10.149][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-13 18:47:10.149][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-13 18:47:10.149][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-13 18:47:10.150][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.150][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.150][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-13 18:47:10.150][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.151][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.151][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.151][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.151][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-13 18:47:10.152][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-13 18:47:10.152][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.152][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.153][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-13 18:47:10.153][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.154][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-11-13 18:47:10.154][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.154][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-13 18:47:10.155][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.155][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.155][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.156][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.156][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-13 18:47:10.156][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-13 18:47:10.157][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.157][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-13 18:47:10.157][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-13 18:47:10.158][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.158][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.158][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.159][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-13 18:47:10.159][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.159][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.159][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-13 18:47:10.160][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.160][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.160][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.161][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.161][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-13 18:47:10.161][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-13 18:47:10.162][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.162][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.162][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-13 18:47:10.163][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.163][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-13 18:47:10.164][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.164][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-13 18:47:10.164][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.165][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.165][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.165][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.166][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-13 18:47:10.166][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-13 18:47:10.166][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.167][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-13 18:47:10.167][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-13 18:47:10.167][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.168][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.168][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.168][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-13 18:47:10.169][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.169][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.169][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-13 18:47:10.170][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.170][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.170][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.171][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.171][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-13 18:47:10.171][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-13 18:47:10.171][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.172][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.172][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-13 18:47:10.172][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.174][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.176][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.177][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.178][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.182][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[2025-11-13 18:47:10.182][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.184][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.186][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.187][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.189][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.190][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.192][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.192][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".
biodb.DEBUG[2025-11-13 18:47:10.193][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-13 18:47:10.193][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-13 18:47:10.193][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-13 18:47:10.194][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-13 18:47:10.194][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-13 18:47:10.195][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-13 18:47:10.195][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-13 18:47:10.195][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-13 18:47:10.196][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-13 18:47:10.196][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-13 18:47:10.197][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-13 18:47:10.197][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-13 18:47:10.197][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-13 18:47:10.198][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-13 18:47:10.198][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-13 18:47:10.198][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-13 18:47:10.199][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-13 18:47:10.199][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-13 18:47:10.200][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-13 18:47:10.200][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-13 18:47:10.200][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-13 18:47:10.201][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-13 18:47:10.201][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-13 18:47:10.201][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-13 18:47:10.202][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-13 18:47:10.202][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-13 18:47:10.203][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-13 18:47:10.203][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-13 18:47:10.203][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-13 18:47:10.204][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-13 18:47:10.204][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-13 18:47:10.205][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-13 18:47:10.205][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-13 18:47:10.205][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-13 18:47:10.206][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-13 18:47:10.206][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-13 18:47:10.207][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-13 18:47:10.207][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-13 18:47:10.208][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-13 18:47:10.208][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-13 18:47:10.208][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-13 18:47:10.209][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-13 18:47:10.209][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-13 18:47:10.209][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-13 18:47:10.210][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-13 18:47:10.213][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-13 18:47:10.214][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-13 18:47:10.214][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-13 18:47:10.214][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-13 18:47:10.215][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-13 18:47:10.215][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-13 18:47:10.215][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-13 18:47:10.216][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-13 18:47:10.216][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-13 18:47:10.217][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-13 18:47:10.217][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-13 18:47:10.217][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-13 18:47:10.218][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-13 18:47:10.218][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-13 18:47:10.218][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-13 18:47:10.219][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-13 18:47:10.219][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-13 18:47:10.220][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-13 18:47:10.220][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-13 18:47:10.220][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-13 18:47:10.221][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-13 18:47:10.221][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-13 18:47:10.221][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-13 18:47:10.222][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-13 18:47:10.222][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-13 18:47:10.223][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-13 18:47:10.223][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-13 18:47:10.223][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-13 18:47:10.224][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-13 18:47:10.224][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-13 18:47:10.224][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-13 18:47:10.225][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-13 18:47:10.225][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-13 18:47:10.226][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-13 18:47:10.226][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-13 18:47:10.226][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-13 18:47:10.227][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-13 18:47:10.227][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-13 18:47:10.228][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-13 18:47:10.228][initialize] This is biodb version 1.19.0.
biodb.DEBUG[2025-11-13 18:47:10.229][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-13 18:47:10.229][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.229][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.230][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.232][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.DEBUG[2025-11-13 18:47:10.233][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.234][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.236][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.236][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.238][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.239][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.241][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.DEBUG[2025-11-13 18:47:10.241][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.241][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.243][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.244][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.246][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.247][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[2025-11-13 18:47:10.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.252][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.255][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.256][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.257][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.259][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.259][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.261][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.263][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-13 18:47:10.264][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-13 18:47:10.264][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.265][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.265][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.265][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-13 18:47:10.265][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.266][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.266][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.266][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-13 18:47:10.267][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-13 18:47:10.267][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-13 18:47:10.267][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.267][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-13 18:47:10.268][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-13 18:47:10.268][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-13 18:47:10.268][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-13 18:47:10.268][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-13 18:47:10.268][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-13 18:47:10.268][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-13 18:47:10.268][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-13 18:47:10.268][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-13 18:47:10.268][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-13 18:47:10.268][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-13 18:47:10.268][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-13 18:47:10.268][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-13 18:47:10.268][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.269][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-13 18:47:10.269][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-13 18:47:10.269][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-13 18:47:10.269][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-13 18:47:10.269][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.269][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.270][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-13 18:47:10.270][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.270][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.270][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.271][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-13 18:47:10.271][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-13 18:47:10.271][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-13 18:47:10.271][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-13 18:47:10.271][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.272][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-13 18:47:10.272][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-13 18:47:10.272][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-13 18:47:10.273][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-13 18:47:10.273][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-13 18:47:10.273][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-13 18:47:10.274][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-13 18:47:10.274][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-13 18:47:10.275][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-13 18:47:10.277][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-13 18:47:10.277][biodb::testThat]
biodb.INFO [2025-11-13 18:47:10.278][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-11-13 18:47:10.278][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-13 18:47:10.278][biodb::testThat]
sched.DEBUG[2025-11-13 18:47:10.279][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-13 18:47:10.280][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:10.282][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-13 18:47:10.282][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-13 18:47:10.283][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 [2025-11-13 18:47:10.284][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:10.285][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-11-13 18:47:10.286][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-13 18:47:10.286][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:10.286][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.287][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.289][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.289][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-13 18:47:10.290][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 [2025-11-13 18:47:10.291][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:10.292][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-11-13 18:47:10.292][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-13 18:47:10.293][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:10.293][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.293][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.295][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.296][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.301][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:10.302][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.302][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.304][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.304][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-13 18:47:10.306][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 [2025-11-13 18:47:10.307][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:10.308][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-11-13 18:47:10.308][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-13 18:47:10.309][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:10.309][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.311][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.312][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.312][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".
sched.DEBUG[2025-11-13 18:47:10.313][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 [2025-11-13 18:47:10.314][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:10.315][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-11-13 18:47:10.315][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-13 18:47:10.315][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:10.316][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.321][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.322][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.322][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:10.323][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.323][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.325][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.326][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.326][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".
sched.DEBUG[2025-11-13 18:47:10.327][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 [2025-11-13 18:47:10.328][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:10.329][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-11-13 18:47:10.329][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-13 18:47:10.330][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:10.330][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.331][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.332][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.333][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-13 18:47:10.334][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 [2025-11-13 18:47:10.335][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:10.335][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-11-13 18:47:10.336][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-13 18:47:10.336][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:10.336][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.337][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.339][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.339][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.339][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".
sched.DEBUG[2025-11-13 18:47:10.340][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 [2025-11-13 18:47:10.341][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:10.342][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-11-13 18:47:10.342][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-13 18:47:10.343][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:10.344][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.344][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.346][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.346][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-13 18:47:10.349][biodb::testThat]
biodb.INFO [2025-11-13 18:47:10.349][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-11-13 18:47:10.350][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-13 18:47:10.350][biodb::testThat]
sched.DEBUG[2025-11-13 18:47:10.351][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 [2025-11-13 18:47:10.353][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:10.353][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-11-13 18:47:10.354][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-13 18:47:10.354][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:10.355][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.357][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.357][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.358][FUN] Functions in observer 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[2025-11-13 18:47:10.359][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 [2025-11-13 18:47:10.360][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:10.360][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-11-13 18:47:10.361][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-13 18:47:10.362][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:10.362][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.364][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.365][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.365][FUN] Functions in observer BiodbConfig: [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 [2025-11-13 18:47:10.367][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-13 18:47:10.367][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-13 18:47:10.368][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-13 18:47:10.368][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.369][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.369][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.369][FUN] Functions in observer BiodbConfig: [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 [2025-11-13 18:47:10.371][biodb::testContext]
biodb.INFO [2025-11-13 18:47:10.371][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-13 18:47:10.372][biodb::testContext] Test context - Test web services
biodb.INFO [2025-11-13 18:47:10.372][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-13 18:47:10.372][biodb::testContext]
biodb.INFO [2025-11-13 18:47:10.373][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.19.0.
biodb.DEBUG[2025-11-13 18:47:10.374][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-11-13 18:47:10.375][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-13 18:47:10.375][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-13 18:47:10.376][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-13 18:47:10.376][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.377][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-13 18:47:10.377][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-13 18:47:10.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.378][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-13 18:47:10.378][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-13 18:47:10.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.379][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-13 18:47:10.380][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-13 18:47:10.380][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-13 18:47:10.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.381][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-13 18:47:10.381][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-13 18:47:10.381][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-13 18:47:10.382][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.382][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-13 18:47:10.383][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-13 18:47:10.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.384][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-13 18:47:10.384][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-13 18:47:10.384][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-13 18:47:10.384][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.385][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-13 18:47:10.385][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-13 18:47:10.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.386][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-13 18:47:10.387][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-13 18:47:10.387][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-13 18:47:10.387][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.388][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-13 18:47:10.389][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-13 18:47:10.389][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-13 18:47:10.389][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-13 18:47:10.389][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-13 18:47:10.390][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-13 18:47:10.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.391][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-13 18:47:10.391][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-13 18:47:10.391][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.392][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-13 18:47:10.392][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-13 18:47:10.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.393][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-13 18:47:10.393][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-13 18:47:10.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.394][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-13 18:47:10.395][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-13 18:47:10.395][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-13 18:47:10.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.396][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-13 18:47:10.397][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-13 18:47:10.405][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-13 18:47:10.405][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.406][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-13 18:47:10.406][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-13 18:47:10.407][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-13 18:47:10.407][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.408][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-13 18:47:10.408][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.409][self$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[2025-11-13 18:47:10.409][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.409][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-13 18:47:10.410][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.410][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.410][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.410][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.411][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-13 18:47:10.411][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-13 18:47:10.411][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.412][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-13 18:47:10.412][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-13 18:47:10.412][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.412][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.413][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-13 18:47:10.413][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-13 18:47:10.413][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-13 18:47:10.413][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-13 18:47:10.413][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-13 18:47:10.413][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-13 18:47:10.413][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.414][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.414][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-13 18:47:10.414][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.415][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.415][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.415][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.416][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-13 18:47:10.416][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-13 18:47:10.416][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.417][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.417][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-13 18:47:10.418][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.418][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-13 18:47:10.418][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.419][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-13 18:47:10.419][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.419][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.419][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.420][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.420][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-13 18:47:10.420][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-13 18:47:10.421][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.421][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-13 18:47:10.421][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-13 18:47:10.422][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.422][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.422][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-13 18:47:10.422][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-13 18:47:10.422][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-13 18:47:10.422][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-13 18:47:10.422][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-13 18:47:10.423][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-13 18:47:10.423][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.423][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.423][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-13 18:47:10.424][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.424][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.424][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.424][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.425][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-13 18:47:10.425][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-13 18:47:10.425][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.425][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.426][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-13 18:47:10.426][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.426][self$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[2025-11-13 18:47:10.427][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.427][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-13 18:47:10.427][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.428][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.428][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.428][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.428][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-13 18:47:10.429][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-13 18:47:10.429][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.429][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-13 18:47:10.429][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-13 18:47:10.430][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.430][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.430][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.431][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-13 18:47:10.431][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.431][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.431][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-13 18:47:10.432][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.432][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.432][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.432][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.433][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-13 18:47:10.433][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-13 18:47:10.433][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.436][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.437][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-13 18:47:10.437][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.438][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-13 18:47:10.438][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.438][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-13 18:47:10.439][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.439][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.439][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.439][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.440][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-13 18:47:10.440][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-13 18:47:10.440][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.440][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-13 18:47:10.441][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-13 18:47:10.441][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.441][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.441][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.442][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-13 18:47:10.442][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.442][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.442][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-13 18:47:10.443][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.443][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.443][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.444][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.444][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-13 18:47:10.444][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-13 18:47:10.444][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.445][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.445][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-13 18:47:10.445][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.446][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.DEBUG[2025-11-13 18:47:10.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.447][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.449][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.DEBUG[2025-11-13 18:47:10.449][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.452][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.455][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[2025-11-13 18:47:10.455][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.456][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[2025-11-13 18:47:10.457][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.459][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[2025-11-13 18:47:10.459][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.460][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[2025-11-13 18:47:10.460][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.461][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[2025-11-13 18:47:10.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.463][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.464][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[2025-11-13 18:47:10.464][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.465][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[2025-11-13 18:47:10.465][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-13 18:47:10.466][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-13 18:47:10.466][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-13 18:47:10.467][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-13 18:47:10.467][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-13 18:47:10.468][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-13 18:47:10.468][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-13 18:47:10.469][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-13 18:47:10.469][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-13 18:47:10.470][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-13 18:47:10.470][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-13 18:47:10.471][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-13 18:47:10.471][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-13 18:47:10.472][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-13 18:47:10.472][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-13 18:47:10.473][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-13 18:47:10.473][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-13 18:47:10.474][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-13 18:47:10.474][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-13 18:47:10.475][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-13 18:47:10.475][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-13 18:47:10.476][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-13 18:47:10.476][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-13 18:47:10.476][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-13 18:47:10.477][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-13 18:47:10.477][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-13 18:47:10.478][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-13 18:47:10.478][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-13 18:47:10.479][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-13 18:47:10.479][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-13 18:47:10.480][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-13 18:47:10.480][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-13 18:47:10.481][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-13 18:47:10.481][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-13 18:47:10.481][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-13 18:47:10.482][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-13 18:47:10.482][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-13 18:47:10.483][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-13 18:47:10.483][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-13 18:47:10.484][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-13 18:47:10.484][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-13 18:47:10.484][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-13 18:47:10.485][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-13 18:47:10.485][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-13 18:47:10.486][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-13 18:47:10.486][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-13 18:47:10.486][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-13 18:47:10.487][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-13 18:47:10.487][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-13 18:47:10.488][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-13 18:47:10.488][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-13 18:47:10.489][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-13 18:47:10.489][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-13 18:47:10.489][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-13 18:47:10.490][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-13 18:47:10.490][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-13 18:47:10.491][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-13 18:47:10.491][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-13 18:47:10.491][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-13 18:47:10.492][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-13 18:47:10.492][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-13 18:47:10.493][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-13 18:47:10.493][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-13 18:47:10.493][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-13 18:47:10.494][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-13 18:47:10.494][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-13 18:47:10.494][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-13 18:47:10.495][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-13 18:47:10.495][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-13 18:47:10.496][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-13 18:47:10.496][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-13 18:47:10.498][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-13 18:47:10.499][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-13 18:47:10.500][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-13 18:47:10.500][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-13 18:47:10.500][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-13 18:47:10.501][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-13 18:47:10.501][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-13 18:47:10.502][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-13 18:47:10.502][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-13 18:47:10.502][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-13 18:47:10.503][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-13 18:47:10.503][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-13 18:47:10.504][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-13 18:47:10.504][initialize] This is biodb version 1.19.0.
biodb.DEBUG[2025-11-13 18:47:10.505][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-13 18:47:10.505][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.505][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.506][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.512][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.514][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.516][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[2025-11-13 18:47:10.516][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.518][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.518][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.520][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[2025-11-13 18:47:10.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.520][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.521][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[2025-11-13 18:47:10.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.523][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[2025-11-13 18:47:10.523][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.525][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[2025-11-13 18:47:10.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.527][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[2025-11-13 18:47:10.527][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.530][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.531][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[2025-11-13 18:47:10.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.533][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[2025-11-13 18:47:10.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.535][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.537][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-13 18:47:10.538][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-13 18:47:10.539][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.539][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.540][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.540][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-13 18:47:10.540][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.541][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.541][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.541][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-13 18:47:10.542][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-13 18:47:10.542][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-13 18:47:10.542][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.543][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-13 18:47:10.543][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-13 18:47:10.543][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-13 18:47:10.543][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-13 18:47:10.543][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-13 18:47:10.543][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-13 18:47:10.543][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-13 18:47:10.543][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-13 18:47:10.543][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-13 18:47:10.543][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-13 18:47:10.543][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-13 18:47:10.543][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-13 18:47:10.543][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-13 18:47:10.544][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.544][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-13 18:47:10.544][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-13 18:47:10.544][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-13 18:47:10.544][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-13 18:47:10.545][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.545][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.545][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-13 18:47:10.546][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.546][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.546][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.547][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-13 18:47:10.547][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-13 18:47:10.547][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-13 18:47:10.547][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-13 18:47:10.547][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.548][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-13 18:47:10.548][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-13 18:47:10.548][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-13 18:47:10.549][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-13 18:47:10.549][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-13 18:47:10.550][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-13 18:47:10.550][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-13 18:47:10.551][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-13 18:47:10.552][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-13 18:47:10.554][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-13 18:47:10.555][biodb::testThat]
biodb.INFO [2025-11-13 18:47:10.555][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-11-13 18:47:10.555][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-13 18:47:10.556][biodb::testThat]
sched.DEBUG[2025-11-13 18:47:10.557][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-13 18:47:10.557][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:10.560][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-13 18:47:10.560][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-13 18:47:10.561][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-11-13 18:47:10.562][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:10.563][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-11-13 18:47:10.564][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-11-13 18:47:10.566][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-13 18:47:10.567][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-13 18:47:10.567][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-13 18:47:10.567][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.568][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.569][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-13 18:47:10.570][biodb::testContext]
biodb.INFO [2025-11-13 18:47:10.571][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-13 18:47:10.571][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-11-13 18:47:10.571][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-13 18:47:10.571][biodb::testContext]
biodb.INFO [2025-11-13 18:47:10.572][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.19.0.
biodb.DEBUG[2025-11-13 18:47:10.573][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-11-13 18:47:10.574][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-13 18:47:10.574][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-13 18:47:10.575][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-13 18:47:10.575][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.576][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[2025-11-13 18:47:10.576][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-13 18:47:10.576][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-13 18:47:10.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.577][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-13 18:47:10.578][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-13 18:47:10.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.578][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[2025-11-13 18:47:10.578][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-13 18:47:10.579][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-13 18:47:10.579][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-13 18:47:10.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.580][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-13 18:47:10.580][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-13 18:47:10.581][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-13 18:47:10.581][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.581][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[2025-11-13 18:47:10.582][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-13 18:47:10.582][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-13 18:47:10.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.583][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-13 18:47:10.583][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-13 18:47:10.583][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-13 18:47:10.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.584][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[2025-11-13 18:47:10.584][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-13 18:47:10.585][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-13 18:47:10.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.586][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-13 18:47:10.586][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-13 18:47:10.586][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-13 18:47:10.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.587][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-13 18:47:10.587][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-13 18:47:10.588][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-13 18:47:10.588][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-13 18:47:10.588][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-13 18:47:10.588][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-13 18:47:10.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.589][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-13 18:47:10.590][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-13 18:47:10.590][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.591][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-13 18:47:10.591][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-13 18:47:10.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.592][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-13 18:47:10.592][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-13 18:47:10.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.593][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-13 18:47:10.593][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-13 18:47:10.594][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-13 18:47:10.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.595][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-13 18:47:10.595][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-13 18:47:10.601][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-13 18:47:10.601][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.602][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-13 18:47:10.602][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-13 18:47:10.602][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-13 18:47:10.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.604][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-13 18:47:10.605][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.605][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-11-13 18:47:10.605][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.606][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-13 18:47:10.606][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.606][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.606][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.607][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.607][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-13 18:47:10.607][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-13 18:47:10.608][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.608][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-13 18:47:10.608][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-13 18:47:10.608][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.609][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.609][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-13 18:47:10.609][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-13 18:47:10.609][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-13 18:47:10.609][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-13 18:47:10.609][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-13 18:47:10.609][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-13 18:47:10.609][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.610][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.610][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-13 18:47:10.610][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.611][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.611][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.611][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.612][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-13 18:47:10.612][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-13 18:47:10.612][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.613][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.613][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-13 18:47:10.613][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.614][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-13 18:47:10.614][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.614][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-13 18:47:10.615][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.615][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.616][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.616][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.616][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-13 18:47:10.617][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-13 18:47:10.617][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.617][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-13 18:47:10.617][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-13 18:47:10.618][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.618][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.619][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-13 18:47:10.619][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-13 18:47:10.619][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-13 18:47:10.619][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-13 18:47:10.619][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-13 18:47:10.619][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-13 18:47:10.619][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.620][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.620][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-13 18:47:10.620][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.620][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.621][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.622][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.622][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-13 18:47:10.623][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-13 18:47:10.623][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.623][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.624][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-13 18:47:10.624][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.625][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-11-13 18:47:10.625][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.625][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-13 18:47:10.626][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.626][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.626][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.627][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.628][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-13 18:47:10.628][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-13 18:47:10.628][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.629][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-13 18:47:10.629][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-13 18:47:10.629][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.630][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.630][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.630][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-13 18:47:10.631][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.631][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.631][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-13 18:47:10.632][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.632][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.632][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.633][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.633][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-13 18:47:10.633][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-13 18:47:10.634][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.634][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.634][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-13 18:47:10.635][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.635][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-13 18:47:10.636][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.636][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-13 18:47:10.636][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.637][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.637][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.637][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.637][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-13 18:47:10.638][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-13 18:47:10.638][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.638][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-13 18:47:10.639][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-13 18:47:10.639][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.639][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.640][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.640][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-13 18:47:10.643][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.644][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.644][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-13 18:47:10.644][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.644][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.645][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.645][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.645][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-13 18:47:10.646][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-13 18:47:10.646][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.646][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-13 18:47:10.647][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-13 18:47:10.647][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.647][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.650][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.652][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.657][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.658][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.662][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".
biodb.DEBUG[2025-11-13 18:47:10.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.664][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.666][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-13 18:47:10.667][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-13 18:47:10.667][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-13 18:47:10.668][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-13 18:47:10.668][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-13 18:47:10.668][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-13 18:47:10.669][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-13 18:47:10.669][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-13 18:47:10.670][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-13 18:47:10.670][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-13 18:47:10.670][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-13 18:47:10.671][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-13 18:47:10.671][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-13 18:47:10.671][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-13 18:47:10.672][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-13 18:47:10.672][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-13 18:47:10.673][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-13 18:47:10.673][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-13 18:47:10.673][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-13 18:47:10.674][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-13 18:47:10.674][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-13 18:47:10.675][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-13 18:47:10.675][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-13 18:47:10.675][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-13 18:47:10.676][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-13 18:47:10.676][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-13 18:47:10.677][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-13 18:47:10.677][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-13 18:47:10.677][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-13 18:47:10.678][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-13 18:47:10.678][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-13 18:47:10.678][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-13 18:47:10.679][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-13 18:47:10.679][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-13 18:47:10.680][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-13 18:47:10.680][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-13 18:47:10.680][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-13 18:47:10.681][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-13 18:47:10.681][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-13 18:47:10.681][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-13 18:47:10.682][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-13 18:47:10.682][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-13 18:47:10.683][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-13 18:47:10.683][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-13 18:47:10.683][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-13 18:47:10.684][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-13 18:47:10.684][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-13 18:47:10.685][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-13 18:47:10.685][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-13 18:47:10.685][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-13 18:47:10.686][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-13 18:47:10.686][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-13 18:47:10.686][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-13 18:47:10.687][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-13 18:47:10.687][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-13 18:47:10.687][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-13 18:47:10.688][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-13 18:47:10.688][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-13 18:47:10.689][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-13 18:47:10.689][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-13 18:47:10.689][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-13 18:47:10.690][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-13 18:47:10.690][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-13 18:47:10.690][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-13 18:47:10.691][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-13 18:47:10.691][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-13 18:47:10.692][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-13 18:47:10.692][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-13 18:47:10.692][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-13 18:47:10.693][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-13 18:47:10.693][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-13 18:47:10.693][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-13 18:47:10.694][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-13 18:47:10.694][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-13 18:47:10.694][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-13 18:47:10.695][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-13 18:47:10.695][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-13 18:47:10.696][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-13 18:47:10.696][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-13 18:47:10.696][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-13 18:47:10.697][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-13 18:47:10.697][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-13 18:47:10.698][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-13 18:47:10.698][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-13 18:47:10.699][initialize] This is biodb version 1.19.0.
biodb.DEBUG[2025-11-13 18:47:10.699][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-13 18:47:10.700][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.700][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.700][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[2025-11-13 18:47:10.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.701][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.702][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[2025-11-13 18:47:10.702][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.704][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[2025-11-13 18:47:10.704][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.705][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[2025-11-13 18:47:10.706][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.707][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.709][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[2025-11-13 18:47:10.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.710][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.711][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[2025-11-13 18:47:10.712][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.714][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.715][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.717][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.717][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.718][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.720][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[2025-11-13 18:47:10.720][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.722][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[2025-11-13 18:47:10.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.722][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.724][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.724][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-13 18:47:10.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-13 18:47:10.734][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-13 18:47:10.734][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-13 18:47:10.735][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.736][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.736][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.736][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-13 18:47:10.737][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.737][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.737][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.737][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-13 18:47:10.738][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-13 18:47:10.738][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-13 18:47:10.738][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.738][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-13 18:47:10.739][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-13 18:47:10.739][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-13 18:47:10.739][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-13 18:47:10.739][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-13 18:47:10.739][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-13 18:47:10.739][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-13 18:47:10.739][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-13 18:47:10.739][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-13 18:47:10.739][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-13 18:47:10.739][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-13 18:47:10.739][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-13 18:47:10.739][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-13 18:47:10.740][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-13 18:47:10.740][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-13 18:47:10.740][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-13 18:47:10.740][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-13 18:47:10.740][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-13 18:47:10.740][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.741][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.741][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-13 18:47:10.741][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-13 18:47:10.742][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-13 18:47:10.742][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-13 18:47:10.742][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-13 18:47:10.742][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-13 18:47:10.742][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-13 18:47:10.743][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-13 18:47:10.743][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-13 18:47:10.743][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-13 18:47:10.743][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-13 18:47:10.744][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-13 18:47:10.744][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-13 18:47:10.744][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-13 18:47:10.745][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-13 18:47:10.745][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-13 18:47:10.746][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-13 18:47:10.747][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-13 18:47:10.749][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-13 18:47:10.749][biodb::testThat]
biodb.INFO [2025-11-13 18:47:10.750][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-11-13 18:47:10.750][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-13 18:47:10.750][biodb::testThat]
sched.DEBUG[2025-11-13 18:47:10.751][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-13 18:47:10.752][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:10.754][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-13 18:47:10.754][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-13 18:47:10.755][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 [2025-11-13 18:47:10.756][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-13 18:47:10.757][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-11-13 18:47:10.757][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-13 18:47:10.759][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-11-13 18:47:10.762][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-13 18:47:10.763][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-13 18:47:10.766][FUN] Found encoding UTF-8 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-11-13 18:47:10.767][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-13 18:47:10.767][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-13 18:47:10.768][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-13 18:47:10.768][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-13 18:47:10.769][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.771][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.771][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-13 18:47:10.773][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:10.774][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:10.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.775][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:10.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:10.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.776][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:10.777][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:10.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.777][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.778][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-13 18:47:10.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-13 18:47:10.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.779][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:10.780][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:10.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.780][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.781][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-13 18:47:10.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-13 18:47:10.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.782][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-13 18:47:10.783][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-13 18:47:10.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.783][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.784][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-13 18:47:10.784][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-13 18:47:10.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.785][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.785][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:10.786][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:10.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.786][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.787][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:10.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-13 18:47:10.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.788][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:10.788][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:10.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.789][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.790][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-13 18:47:10.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-13 18:47:10.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.791][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:10.791][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:10.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.792][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.792][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:10.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-13 18:47:10.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.794][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:10.794][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:10.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.794][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.795][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-13 18:47:10.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-13 18:47:10.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.796][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:10.797][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:10.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.797][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.798][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-13 18:47:10.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-13 18:47:10.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.799][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:10.799][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:10.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.800][ef$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.800][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-13 18:47:10.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-13 18:47:10.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.801][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:10.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:10.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:10.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:10.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:10.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:10.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-13 18:47:10.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-13 18:47:10.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:10.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:10.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:10.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:10.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.808][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:10.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:10.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:10.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:10.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:10.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:10.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-13 18:47:10.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-13 18:47:10.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-13 18:47:10.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-13 18:47:10.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-13 18:47:10.813][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-11-13 18:47:10.814][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-13 18:47:10.815][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-13 18:47:10.815][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-13 18:47:10.815][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-13 18:47:10.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-13 18:47:10.816][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-13 18:47:10.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-13 18:47:10.816][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-13 18:47:10.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 1 | PASS 357 ]

══ Skipped tests (1) ═══════════════════════════════════════════════════════════
• empty test (1):

[ FAIL 0 | WARN 0 | SKIP 1 | PASS 357 ]
> 
> proc.time()
   user  system elapsed 
  5.092   0.306   6.726

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn0.7370.2971.114
ChebiEntry0.0930.0090.103