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This page was generated on 2025-11-17 11:39 -0500 (Mon, 17 Nov 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_64R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences" 4826
lconwaymacOS 12.7.6 Montereyx86_64R Under development (unstable) (2025-10-21 r88958) -- "Unsuffered Consequences" 4491
kjohnson3macOS 13.7.7 Venturaarm64R Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences" 4562
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: 2025-11-16 13:40 -0500 (Sun, 16 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
lconwaymacOS 12.7.6 Monterey / x86_64  OK    OK    OK    OK  YES
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published

CHECK results for biodbChebi on lconway

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

raw results


Summary

Package: biodbChebi
Version: 1.17.0
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: 2025-11-17 01:14:13 -0500 (Mon, 17 Nov 2025)
EndedAt: 2025-11-17 01:15:38 -0500 (Mon, 17 Nov 2025)
EllapsedTime: 85.1 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) (2025-10-21 r88958)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 14.2.0
* running under: macOS 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-x86_64/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) (2025-10-21 r88958) -- "Unsuffered Consequences"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-11-17 01:15:11.972][biodb::testContext]
biodb.INFO [2025-11-17 01:15:11.978][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-17 01:15:11.979][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-11-17 01:15:11.981][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-17 01:15:11.982][biodb::testContext]
biodb.INFO [2025-11-17 01:15:11.990][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.19.0.
biodb.DEBUG[2025-11-17 01:15:11.993][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-11-17 01:15:12.001][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-17 01:15:12.003][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-17 01:15:12.004][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-17 01:15:12.005][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.008][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-17 01:15:12.027][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-17 01:15:12.029][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.033][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-17 01:15:12.034][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-17 01:15:12.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.050][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-17 01:15:12.051][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-17 01:15:12.052][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-17 01:15:12.053][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.056][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-17 01:15:12.056][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-17 01:15:12.057][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-17 01:15:12.058][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.061][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-17 01:15:12.062][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-17 01:15:12.063][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.065][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-17 01:15:12.066][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-17 01:15:12.067][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-17 01:15:12.068][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.070][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-17 01:15:12.071][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-17 01:15:12.072][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.075][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-17 01:15:12.076][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-17 01:15:12.078][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-17 01:15:12.079][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.083][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-17 01:15:12.085][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-17 01:15:12.086][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-17 01:15:12.087][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-17 01:15:12.087][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-17 01:15:12.088][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-17 01:15:12.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.092][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-17 01:15:12.093][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-17 01:15:12.094][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.096][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-17 01:15:12.097][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-17 01:15:12.098][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.100][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[2025-11-17 01:15:12.101][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-17 01:15:12.103][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-17 01:15:12.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.107][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-17 01:15:12.109][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-17 01:15:12.110][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-17 01:15:12.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.115][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-17 01:15:12.117][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-17 01:15:12.148][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-17 01:15:12.149][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.152][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-17 01:15:12.153][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-17 01:15:12.154][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-17 01:15:12.154][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.161][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-17 01:15:12.200][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:12.217][self$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[2025-11-17 01:15:12.218][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:12.220][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-17 01:15:12.221][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:12.221][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-17 01:15:12.222][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:12.223][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-17 01:15:12.224][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-17 01:15:12.225][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-17 01:15:12.226][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:12.227][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-17 01:15:12.228][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-17 01:15:12.229][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:12.229][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:12.231][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-17 01:15:12.231][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-17 01:15:12.231][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-17 01:15:12.231][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-17 01:15:12.231][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-17 01:15:12.232][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-17 01:15:12.232][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:12.233][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:12.234][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-17 01:15:12.235][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:12.236][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:12.237][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-17 01:15:12.238][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:12.239][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-17 01:15:12.240][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-17 01:15:12.242][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:12.243][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:12.245][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-17 01:15:12.247][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:12.248][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-17 01:15:12.249][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:12.250][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-17 01:15:12.252][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:12.253][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-17 01:15:12.254][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:12.256][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-17 01:15:12.257][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-17 01:15:12.265][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-17 01:15:12.266][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:12.267][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-17 01:15:12.268][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-17 01:15:12.269][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:12.270][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:12.271][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-17 01:15:12.271][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-17 01:15:12.271][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-17 01:15:12.271][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-17 01:15:12.271][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-17 01:15:12.272][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-17 01:15:12.273][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:12.274][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:12.275][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-17 01:15:12.276][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:12.278][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:12.279][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-17 01:15:12.280][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:12.281][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-17 01:15:12.282][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-17 01:15:12.283][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:12.284][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:12.285][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-17 01:15:12.286][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:12.287][self$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[2025-11-17 01:15:12.288][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:12.289][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-17 01:15:12.290][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:12.292][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-17 01:15:12.293][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:12.294][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-17 01:15:12.296][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-17 01:15:12.297][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-17 01:15:12.299][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:12.300][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-17 01:15:12.301][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-17 01:15:12.302][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:12.303][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:12.305][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:12.306][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-17 01:15:12.307][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:12.308][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:12.309][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-17 01:15:12.310][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:12.311][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:12.312][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-17 01:15:12.313][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:12.313][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-17 01:15:12.315][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-17 01:15:12.316][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:12.318][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:12.319][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-17 01:15:12.321][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:12.322][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-17 01:15:12.323][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:12.324][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-17 01:15:12.324][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:12.325][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-17 01:15:12.326][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:12.327][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-17 01:15:12.328][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-17 01:15:12.329][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-17 01:15:12.330][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:12.331][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-17 01:15:12.332][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-17 01:15:12.332][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:12.333][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:12.334][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:12.335][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-17 01:15:12.336][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:12.337][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:12.338][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-17 01:15:12.338][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:12.339][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:12.340][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-17 01:15:12.341][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:12.342][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-17 01:15:12.343][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-17 01:15:12.343][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:12.344][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:12.347][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-17 01:15:12.348][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.350][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.362][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.365][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.DEBUG[2025-11-17 01:15:12.366][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.388][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[2025-11-17 01:15:12.389][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.392][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[2025-11-17 01:15:12.393][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.396][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[2025-11-17 01:15:12.397][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.400][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.404][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[2025-11-17 01:15:12.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.407][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[2025-11-17 01:15:12.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.416][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-17 01:15:12.420][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-17 01:15:12.421][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-17 01:15:12.423][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-17 01:15:12.424][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-17 01:15:12.425][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-17 01:15:12.426][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-17 01:15:12.433][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-17 01:15:12.434][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-17 01:15:12.435][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-17 01:15:12.436][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-17 01:15:12.437][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-17 01:15:12.438][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-17 01:15:12.440][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-17 01:15:12.441][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-17 01:15:12.442][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-17 01:15:12.443][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-17 01:15:12.444][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-17 01:15:12.446][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-17 01:15:12.447][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-17 01:15:12.448][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-17 01:15:12.449][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-17 01:15:12.450][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-17 01:15:12.451][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-17 01:15:12.453][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-17 01:15:12.454][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-17 01:15:12.455][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-17 01:15:12.456][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-17 01:15:12.458][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-17 01:15:12.459][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-17 01:15:12.460][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-17 01:15:12.461][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-17 01:15:12.462][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-17 01:15:12.464][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-17 01:15:12.465][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-17 01:15:12.466][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-17 01:15:12.467][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-17 01:15:12.468][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-17 01:15:12.469][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-17 01:15:12.471][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-17 01:15:12.472][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-17 01:15:12.473][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-17 01:15:12.474][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-17 01:15:12.475][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-17 01:15:12.476][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-17 01:15:12.478][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-17 01:15:12.479][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-17 01:15:12.480][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-17 01:15:12.481][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-17 01:15:12.483][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-17 01:15:12.484][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-17 01:15:12.485][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-17 01:15:12.486][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-17 01:15:12.487][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-17 01:15:12.488][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-17 01:15:12.490][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-17 01:15:12.491][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-17 01:15:12.492][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-17 01:15:12.493][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-17 01:15:12.494][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-17 01:15:12.495][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-17 01:15:12.497][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-17 01:15:12.498][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-17 01:15:12.499][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-17 01:15:12.500][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-17 01:15:12.501][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-17 01:15:12.503][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-17 01:15:12.504][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-17 01:15:12.505][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-17 01:15:12.506][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-17 01:15:12.507][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-17 01:15:12.509][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-17 01:15:12.510][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-17 01:15:12.511][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-17 01:15:12.512][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-17 01:15:12.513][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-17 01:15:12.514][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-17 01:15:12.516][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-17 01:15:12.517][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-17 01:15:12.518][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-17 01:15:12.519][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-17 01:15:12.520][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-17 01:15:12.521][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-17 01:15:12.527][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-17 01:15:12.528][initialize] This is biodb version 1.19.0.
biodb.DEBUG[2025-11-17 01:15:12.531][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-17 01:15:12.531][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.533][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:12.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:12.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:12.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:12.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:12.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:12.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.554][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:12.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:12.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.560][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:12.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:12.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.565][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:12.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:12.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.574][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.576][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[2025-11-17 01:15:12.577][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:12.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:12.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.581][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[2025-11-17 01:15:12.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:12.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:12.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.587][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[2025-11-17 01:15:12.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:12.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:12.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.592][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[2025-11-17 01:15:12.593][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:12.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:12.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:12.600][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:12.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.603][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[2025-11-17 01:15:12.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:12.606][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:12.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:12.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:12.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:12.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:12.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.620][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:12.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:12.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:12.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:12.627][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:12.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:12.634][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-17 01:15:12.644][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-17 01:15:12.646][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:12.647][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-17 01:15:12.648][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:12.649][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-17 01:15:12.649][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:12.650][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-17 01:15:12.651][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:12.652][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-17 01:15:12.653][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-17 01:15:12.654][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-17 01:15:12.655][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:12.656][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-17 01:15:12.656][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-17 01:15:12.657][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-17 01:15:12.657][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-17 01:15:12.657][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-17 01:15:12.657][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-17 01:15:12.657][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-17 01:15:12.657][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-17 01:15:12.657][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-17 01:15:12.657][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-17 01:15:12.657][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-17 01:15:12.657][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-17 01:15:12.657][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-17 01:15:12.658][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:12.659][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-17 01:15:12.659][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-17 01:15:12.659][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-17 01:15:12.660][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-17 01:15:12.661][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:12.662][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:12.662][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-17 01:15:12.663][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:12.664][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:12.665][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-17 01:15:12.666][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-17 01:15:12.666][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-17 01:15:12.667][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-17 01:15:12.667][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-17 01:15:12.668][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:12.669][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-17 01:15:12.669][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-17 01:15:12.674][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-17 01:15:12.676][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-17 01:15:12.677][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-17 01:15:12.678][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-17 01:15:12.680][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-17 01:15:12.681][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-17 01:15:12.703][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-17 01:15:12.719][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-17 01:15:12.727][biodb::testThat]
biodb.INFO [2025-11-17 01:15:12.728][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-11-17 01:15:12.729][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-17 01:15:12.729][biodb::testThat]
biodb.TRACE[2025-11-17 01:15:12.734][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-11-17 01:15:12.745][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-17 01:15:12.750][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-17 01:15:12.759][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:12.760][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:12.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:12.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:12.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:12.781][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:12.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:12.794][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:12.795][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:12.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.799][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:12.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:12.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:12.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:12.819][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:12.821][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:12.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.823][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:12.857][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:12.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:12.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:12.863][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:12.864][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:12.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.867][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:12.868][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:12.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:12.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:12.872][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:12.874][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:12.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.876][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:12.878][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:12.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:12.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:12.884][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:12.885][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:12.887][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.888][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:12.889][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:12.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:12.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:12.894][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:12.896][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:12.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.898][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:12.900][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:12.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:12.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:12.905][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:12.907][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:12.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.908][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:12.910][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:12.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:12.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:12.914][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:12.915][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:12.916][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.917][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:12.918][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:12.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:12.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:12.934][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:12.935][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:12.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.938][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:12.940][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:12.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:12.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:12.944][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:12.945][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:12.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.948][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:12.949][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:12.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:12.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:12.954][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:12.955][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:12.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.958][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:12.959][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:12.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:12.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:12.963][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:12.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:12.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:12.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:12.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:12.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:12.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:12.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:12.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:12.977][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:12.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:12.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:12.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:12.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:12.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:12.985][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:12.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:12.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:12.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:12.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:12.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:12.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:13.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:13.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.039][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:13.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:13.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:13.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:13.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:13.048][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-11-17 01:15:13.050][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:13.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:13.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.055][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:13.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:13.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.142][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:13.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:13.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.146][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:13.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:13.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.151][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:13.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:13.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.155][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:13.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:13.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.161][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-17 01:15:13.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-17 01:15:13.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.166][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-17 01:15:13.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-17 01:15:13.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.171][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-17 01:15:13.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-17 01:15:13.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.176][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-17 01:15:13.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-17 01:15:13.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:13.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:13.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.208][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:13.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:13.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:13.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:13.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.225][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:13.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:13.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:13.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:13.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:13.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:13.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.239][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:13.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:13.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:13.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:13.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:13.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:13.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.252][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:13.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:13.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:13.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:13.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.271][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:13.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:13.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:13.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:13.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:13.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:13.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.291][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:13.292][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:13.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.294][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:13.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:13.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.313][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:13.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:13.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.318][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:13.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:13.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.322][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:13.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:13.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.327][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:13.328][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:13.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.330][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:13.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:13.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.346][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:13.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:13.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.352][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:13.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:13.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.357][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:13.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:13.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.363][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:13.364][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:13.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.366][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.367][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:13.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:13.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.382][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:13.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:13.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.387][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:13.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:13.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.391][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:13.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:13.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.395][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:13.396][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:13.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.397][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.398][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:13.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:13.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.413][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:13.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:13.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.419][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:13.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:13.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.424][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:13.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:13.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.429][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:13.431][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:13.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.432][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.433][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:13.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:13.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:13.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:13.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:13.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:13.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:13.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:13.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.470][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:13.471][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:13.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.473][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.474][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:13.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:13.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.490][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:13.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:13.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.495][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:13.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:13.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.499][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:13.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:13.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.505][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:13.506][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:13.507][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.509][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.510][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:13.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:13.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.526][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-17 01:15:13.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:13.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.532][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-17 01:15:13.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:13.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.536][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-17 01:15:13.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:13.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.541][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-17 01:15:13.543][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:13.544][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.545][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.547][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-17 01:15:13.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:13.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.562][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:13.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:13.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.566][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:13.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:13.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.570][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:13.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:13.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.573][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:13.574][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:13.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.576][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.577][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:13.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:13.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.591][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:13.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:13.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.596][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:13.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:13.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.600][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:13.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:13.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.604][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:13.605][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:13.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.607][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.614][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:13.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:13.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.633][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:13.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:13.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.640][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:13.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:13.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.644][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:13.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:13.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.648][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:13.649][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:13.650][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.651][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.652][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:13.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:13.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.667][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:13.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:13.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.672][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:13.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:13.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.676][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:13.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:13.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.682][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:13.684][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:13.685][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.686][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.688][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:13.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:13.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.706][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:13.708][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:13.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.710][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.718][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:13.720][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:13.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.722][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.730][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:13.731][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:13.733][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.734][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.741][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:13.743][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:13.744][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.745][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.753][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:13.754][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:13.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.757][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.763][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:13.765][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:13.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.768][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.775][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:13.777][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:13.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.780][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.787][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:13.789][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:13.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.791][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.799][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-17 01:15:13.801][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:13.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.804][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.820][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:13.821][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:13.823][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.824][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.833][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:13.834][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:13.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.837][ef$get] fields variable is a list.
biodb.INFO [2025-11-17 01:15:13.849][biodb::testThat]
biodb.INFO [2025-11-17 01:15:13.850][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-11-17 01:15:13.851][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-17 01:15:13.853][biodb::testThat]
biodb.DEBUG[2025-11-17 01:15:13.870][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-11-17 01:15:13.879][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-17 01:15:13.884][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-17 01:15:13.891][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-11-17 01:15:13.892][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-17 01:15:13.925][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-17 01:15:13.926][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-17 01:15:13.928][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:13.929][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:13.930][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:13.936][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:13.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:13.939][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:13.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:13.943][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:13.944][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:13.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.946][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:13.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:13.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.970][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:13.971][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:13.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.974][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.976][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:13.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:13.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.988][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:13.989][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:13.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.992][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.994][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:13.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:13.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:13.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:13.999][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:14.001][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:14.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.003][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.005][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:14.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:14.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.009][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:14.010][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:14.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.012][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.014][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:14.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:14.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.019][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:14.020][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:14.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.022][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.023][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:14.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:14.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.029][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:14.030][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:14.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.032][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.034][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:14.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:14.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.038][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:14.039][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:14.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.041][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.042][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:14.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:14.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.046][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:14.047][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:14.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.049][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.051][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:14.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:14.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.056][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:14.058][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:14.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.060][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.062][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:14.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:14.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.067][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:14.069][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:14.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.071][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.072][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:14.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:14.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:14.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:14.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.079][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:14.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:14.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:14.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:14.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.086][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:14.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:14.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:14.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:14.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:14.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:14.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:14.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:14.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:14.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:14.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:14.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:14.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:14.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:14.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:14.112][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-11-17 01:15:14.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-11-17 01:15:14.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-11-17 01:15:14.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.119][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-11-17 01:15:14.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-11-17 01:15:14.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-11-17 01:15:14.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-11-17 01:15:14.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-17 01:15:14.159][biodb::testThat]
biodb.INFO [2025-11-17 01:15:14.161][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-11-17 01:15:14.162][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-17 01:15:14.162][biodb::testThat]
biodb.TRACE[2025-11-17 01:15:14.166][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:14.166][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:14.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.168][ef$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:14.169][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-11-17 01:15:14.207][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:14.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:14.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.212][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:14.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:14.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.216][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:14.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:14.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:14.224][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-11-17 01:15:14.232][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-17 01:15:14.258][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:14.263][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-17 01:15:14.265][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-17 01:15:14.291][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 [2025-11-17 01:15:14.317][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:14.321][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-17 01:15:14.322][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-17 01:15:14.324][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-11-17 01:15:14.343][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:14.345][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:14.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.347][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.349][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:14.350][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:14.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.353][ef$get] fields variable is a list.
biodb.INFO [2025-11-17 01:15:14.360][biodb::testThat]
biodb.INFO [2025-11-17 01:15:14.361][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-11-17 01:15:14.362][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-17 01:15:14.363][biodb::testThat]
biodb.TRACE[2025-11-17 01:15:14.390][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:14.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:14.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.397][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:14.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:14.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.401][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:14.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:14.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-17 01:15:14.481][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 [2025-11-17 01:15:14.485][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:14.488][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-17 01:15:14.490][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-11-17 01:15:14.514][biodb::testThat]
biodb.INFO [2025-11-17 01:15:14.516][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-11-17 01:15:14.517][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-17 01:15:14.519][biodb::testThat]
biodb.TRACE[2025-11-17 01:15:14.548][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:14.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:14.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.554][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:14.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:14.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.560][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:14.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:14.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.564][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:14.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:14.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.570][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:14.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:14.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.574][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:14.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:14.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.578][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-17 01:15:14.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-17 01:15:14.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.581][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-17 01:15:14.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-17 01:15:14.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.590][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-17 01:15:14.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-17 01:15:14.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.594][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-17 01:15:14.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-17 01:15:14.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.613][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:14.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:14.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.617][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:14.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:14.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.621][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:14.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:14.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.625][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:14.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:14.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.630][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:14.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:14.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.636][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:14.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:14.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.641][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-17 01:15:14.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-17 01:15:14.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.646][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-17 01:15:14.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-17 01:15:14.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.651][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-17 01:15:14.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-17 01:15:14.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:14.656][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-17 01:15:14.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-17 01:15:14.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:14.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-17 01:15:14.668][biodb::testThat]
biodb.INFO [2025-11-17 01:15:14.670][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-11-17 01:15:14.671][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-17 01:15:14.672][biodb::testThat]
biodb.INFO [2025-11-17 01:15:14.683][biodb::testThat]
biodb.INFO [2025-11-17 01:15:14.685][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-11-17 01:15:14.686][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-17 01:15:14.687][biodb::testThat]
biodb.INFO [2025-11-17 01:15:14.700][biodb::testThat]
biodb.INFO [2025-11-17 01:15:14.701][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-11-17 01:15:14.703][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-17 01:15:14.704][biodb::testThat]
biodb.DEBUG[2025-11-17 01:15:14.710][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-11-17 01:15:15.534][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-11-17 01:15:16.158][biodb::testThat]
biodb.INFO [2025-11-17 01:15:16.160][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-11-17 01:15:16.171][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-17 01:15:16.172][biodb::testThat]
biodb.TRACE[2025-11-17 01:15:16.181][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:16.182][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:16.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.185][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.186][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:16.187][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:16.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.189][ef$get] fields variable is a list.
biodb.INFO [2025-11-17 01:15:16.191][biodb::testThat]
biodb.INFO [2025-11-17 01:15:16.192][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-11-17 01:15:16.194][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-17 01:15:16.195][biodb::testThat]
biodb.TRACE[2025-11-17 01:15:16.210][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:16.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:16.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.215][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:16.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:16.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.220][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:16.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:16.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-17 01:15:16.357][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 [2025-11-17 01:15:16.360][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:16.362][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-17 01:15:16.364][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-17 01:15:16.475][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 [2025-11-17 01:15:16.479][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:16.482][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-17 01:15:16.484][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-11-17 01:15:16.505][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-17 01:15:16.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-17 01:15:16.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.517][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:16.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:16.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:16.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:16.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.528][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:16.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:16.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.533][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:16.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:16.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:16.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:16.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-17 01:15:16.546][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 [2025-11-17 01:15:16.549][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:16.552][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-17 01:15:16.553][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-17 01:15:16.556][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:16.557][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:16.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:16.565][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:16.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:16.568][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:16.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:16.570][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-11-17 01:15:16.638][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-17 01:15:16.639][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-17 01:15:16.643][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-11-17 01:15:16.644][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-17 01:15:16.646][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-17 01:15:16.647][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-17 01:15:16.649][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:16.651][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:16.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:16.660][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:16.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:16.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:16.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:16.666][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:16.667][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:16.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.669][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:16.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:16.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.675][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:16.676][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:16.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.678][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.679][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:16.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:16.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.683][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:16.684][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:16.685][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.686][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.687][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:16.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:16.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.691][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:16.692][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:16.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.693][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.694][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:16.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:16.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.699][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:16.700][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:16.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.703][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.704][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:16.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:16.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.708][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:16.709][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:16.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.711][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.712][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:16.713][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:16.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.715][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.716][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:16.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:16.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.721][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:16.721][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:16.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.729][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.730][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:16.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:16.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.734][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:16.735][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:16.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.736][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.738][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:16.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:16.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.741][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:16.742][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:16.743][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.744][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.745][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:16.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:16.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.749][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:16.750][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:16.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.751][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.752][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:16.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:16.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.756][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:16.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:16.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.759][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:16.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:16.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:16.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:16.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:16.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:16.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:16.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:16.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:16.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:16.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:16.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:16.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:16.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:16.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:16.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:16.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:16.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:16.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:16.791][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-11-17 01:15:16.799][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:16.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:16.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.803][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:16.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:16.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.807][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:16.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:16.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-17 01:15:16.811][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-17 01:15:16.813][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:16.816][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-17 01:15:16.817][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-17 01:15:16.843][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:16.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:16.846][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:16.852][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:16.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:16.855][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:16.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:16.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:16.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:16.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.862][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:16.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:16.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.867][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:16.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:16.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:16.872][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:16.873][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:16.874][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:16.881][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:16.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:16.884][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:16.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:16.887][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-11-17 01:15:16.888][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-17 01:15:16.891][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-17 01:15:16.895][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-11-17 01:15:16.896][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-17 01:15:16.898][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-17 01:15:16.899][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-17 01:15:16.901][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:16.902][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:16.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:16.908][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:16.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:16.910][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:16.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:16.914][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:16.915][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:16.917][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.918][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.920][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:16.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:16.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.924][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:16.925][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:16.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.926][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.928][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:16.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:16.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.931][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:16.932][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:16.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.934][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.935][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:16.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:16.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.939][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:16.940][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:16.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.942][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.944][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:16.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:16.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.950][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:16.951][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:16.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.953][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.955][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:16.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:16.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.968][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:16.970][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:16.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.972][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.974][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:16.975][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:16.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.978][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.980][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:16.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:16.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.986][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:16.988][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:16.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.991][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.992][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:16.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:16.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:16.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:16.998][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:16.999][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:17.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.001][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.002][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:17.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:17.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.006][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:17.007][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:17.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.009][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.010][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:17.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:17.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.016][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:17.017][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:17.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.020][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.021][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:17.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:17.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.025][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.029][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.038][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:17.074][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-11-17 01:15:17.075][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.084][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-17 01:15:17.122][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 [2025-11-17 01:15:17.124][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:17.127][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-17 01:15:17.128][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-17 01:15:17.131][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:17.132][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:17.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:17.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:17.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:17.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:17.144][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[2025-11-17 01:15:17.145][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.149][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.153][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:17.158][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:17.159][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:17.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:17.167][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:17.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:17.170][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:17.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:17.172][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-11-17 01:15:17.173][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-17 01:15:17.174][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-17 01:15:17.178][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-11-17 01:15:17.180][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-17 01:15:17.181][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-17 01:15:17.183][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-17 01:15:17.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:17.186][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:17.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:17.195][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:17.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:17.198][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:17.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:17.203][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.205][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.207][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.212][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:17.213][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:17.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.215][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.216][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:17.217][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:17.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.219][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.220][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:17.221][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:17.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.224][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.225][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:17.227][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:17.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.229][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.231][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:17.232][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:17.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.235][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.236][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:17.238][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.240][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.242][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:17.243][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:17.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.252][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.254][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:17.256][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:17.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.258][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.260][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:17.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:17.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.265][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:17.266][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:17.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.268][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.269][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:17.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:17.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.273][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:17.274][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:17.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.276][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.277][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:17.320][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-11-17 01:15:17.321][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.325][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.329][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.332][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:17.340][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:17.340][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:17.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:17.348][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:17.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:17.351][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:17.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:17.354][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-11-17 01:15:17.355][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-17 01:15:17.357][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-17 01:15:17.362][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-11-17 01:15:17.364][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-17 01:15:17.366][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-17 01:15:17.367][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-17 01:15:17.370][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:17.371][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:17.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:17.387][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:17.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:17.390][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:17.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:17.394][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.396][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.398][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.405][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:17.406][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:17.407][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.408][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.409][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:17.410][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:17.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.412][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.413][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:17.414][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:17.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.416][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.418][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:17.419][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:17.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.422][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.423][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:17.425][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:17.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.427][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.429][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:17.430][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.433][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.434][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:17.436][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:17.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.438][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.440][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:17.441][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:17.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.444][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.446][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:17.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:17.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.449][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:17.450][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:17.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.452][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.453][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:17.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:17.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.457][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:17.458][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:17.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.460][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.461][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.466][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.475][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.490][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.494][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:17.517][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-11-17 01:15:17.518][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.532][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:17.541][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:17.542][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:17.543][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:17.549][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:17.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:17.551][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:17.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:17.553][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-11-17 01:15:17.554][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-17 01:15:17.556][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-17 01:15:17.559][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-11-17 01:15:17.560][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-17 01:15:17.562][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-17 01:15:17.563][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-17 01:15:17.564][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:17.565][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:17.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:17.573][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:17.574][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:17.575][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:17.576][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.TRACE[2025-11-17 01:15:17.579][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.581][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.583][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.585][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.590][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:17.592][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:17.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.594][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.596][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:17.597][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:17.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.599][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.601][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:17.603][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:17.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.604][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.605][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:17.606][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:17.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.608][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.610][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:17.612][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:17.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.614][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.615][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:17.617][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.619][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.620][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:17.622][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:17.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.624][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.626][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:17.627][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:17.628][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.630][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.632][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:17.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:17.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.636][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:17.637][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:17.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.640][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.660][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:17.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:17.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.666][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:17.667][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:17.667][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.668][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.670][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.675][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.683][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:17.718][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-11-17 01:15:17.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.725][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.729][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.734][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.738][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:17.742][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:17.743][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:17.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:17.751][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:17.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:17.753][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:17.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:17.755][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-11-17 01:15:17.756][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-17 01:15:17.758][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-17 01:15:17.764][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-11-17 01:15:17.765][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-17 01:15:17.767][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-17 01:15:17.768][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-17 01:15:17.770][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:17.771][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:17.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:17.779][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:17.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:17.781][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:17.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:17.785][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.787][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.789][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.804][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:17.806][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:17.808][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.809][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.810][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:17.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:17.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.814][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:17.815][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:17.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.818][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.819][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:17.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:17.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.825][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:17.827][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:17.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.829][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.831][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:17.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:17.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.836][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:17.838][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:17.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.840][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.842][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:17.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:17.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.847][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:17.848][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:17.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.851][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.853][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:17.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:17.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.858][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:17.859][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.861][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.862][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:17.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.867][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:17.868][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:17.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.870][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.872][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:17.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:17.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.877][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:17.879][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:17.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.881][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.883][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:17.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:17.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.887][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:17.888][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:17.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.890][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.891][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:17.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:17.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.895][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:17.896][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:17.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.898][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.899][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:17.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:17.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.903][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:17.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.946][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.952][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:17.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:17.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:17.964][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-11-17 01:15:17.965][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.969][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:17.974][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:17.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:17.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:17.978][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:17.979][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:17.980][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:17.987][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:17.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:17.989][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:17.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:17.991][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-11-17 01:15:17.992][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-17 01:15:17.993][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-17 01:15:17.998][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-11-17 01:15:18.000][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-17 01:15:18.002][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-17 01:15:18.004][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-17 01:15:18.006][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:18.007][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:18.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:18.015][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:18.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:18.018][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:18.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:18.021][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.022][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.025][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.030][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:18.031][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:18.033][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.034][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.035][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:18.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:18.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.039][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:18.040][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:18.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.043][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.044][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:18.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:18.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.049][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:18.050][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:18.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.052][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.054][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:18.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:18.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.059][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:18.060][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:18.061][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.062][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.063][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:18.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:18.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.068][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:18.069][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:18.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.071][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.072][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:18.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:18.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.087][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:18.089][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.092][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.094][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:18.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.099][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:18.101][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:18.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.103][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.104][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:18.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:18.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.110][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:18.112][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:18.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.114][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.115][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:18.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:18.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.120][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:18.121][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:18.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.124][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.125][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:18.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:18.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.129][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:18.130][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:18.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.132][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.133][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:18.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:18.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.137][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:18.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:18.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:18.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:18.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.145][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.149][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:18.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:18.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:18.187][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-11-17 01:15:18.189][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.195][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.201][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:18.206][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:18.208][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:18.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:18.217][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:18.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:18.221][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:18.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:18.234][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-11-17 01:15:18.236][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-17 01:15:18.239][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-17 01:15:18.245][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-11-17 01:15:18.247][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-17 01:15:18.249][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-17 01:15:18.252][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-17 01:15:18.254][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:18.255][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:18.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:18.265][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:18.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:18.268][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:18.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:18.272][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.274][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.277][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.282][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:18.283][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:18.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.285][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.286][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:18.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:18.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.290][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:18.291][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:18.291][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.292][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.293][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:18.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:18.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.297][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:18.298][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:18.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.300][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.301][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:18.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:18.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.305][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:18.305][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:18.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.308][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.310][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:18.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:18.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.316][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:18.317][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:18.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.319][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.321][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:18.323][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.324][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.325][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.327][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:18.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.331][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:18.332][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:18.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.334][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.335][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:18.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:18.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.338][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:18.339][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:18.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.341][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.342][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:18.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:18.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.347][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:18.349][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:18.350][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.351][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.353][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:18.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:18.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.358][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:18.359][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:18.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.361][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.363][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:18.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:18.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.374][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:18.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:18.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:18.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:18.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.392][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:18.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:18.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:18.425][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-11-17 01:15:18.426][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.429][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.433][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:18.437][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:18.438][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:18.438][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:18.445][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:18.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:18.447][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:18.449][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[2025-11-17 01:15:18.450][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-11-17 01:15:18.452][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-17 01:15:18.454][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-17 01:15:18.459][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-11-17 01:15:18.461][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-17 01:15:18.462][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-17 01:15:18.464][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-17 01:15:18.466][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:18.467][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:18.468][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:18.476][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:18.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:18.479][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:18.481][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[2025-11-17 01:15:18.484][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.486][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.487][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.488][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.490][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.496][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:18.497][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:18.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.500][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.502][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:18.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:18.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.508][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:18.509][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:18.511][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.512][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.514][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:18.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:18.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.525][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:18.526][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:18.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.528][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.530][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:18.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:18.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.534][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:18.535][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:18.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.537][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.539][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:18.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:18.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.544][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:18.546][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:18.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.548][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.550][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:18.551][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.552][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.553][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.555][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:18.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.559][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:18.560][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:18.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.562][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.563][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:18.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:18.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.568][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:18.569][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:18.570][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.571][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.572][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:18.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:18.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.576][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:18.577][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:18.578][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.579][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.581][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:18.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:18.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.585][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:18.586][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:18.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.588][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.589][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:18.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:18.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.593][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:18.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:18.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.598][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:18.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:18.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:18.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:18.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:18.634][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-11-17 01:15:18.635][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.644][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.648][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:18.652][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:18.652][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:18.653][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:18.659][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:18.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:18.661][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:18.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:18.663][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-11-17 01:15:18.664][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-17 01:15:18.665][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-17 01:15:18.669][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-11-17 01:15:18.670][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-17 01:15:18.672][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-17 01:15:18.673][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-17 01:15:18.676][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:18.677][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:18.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:18.686][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:18.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:18.689][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:18.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:18.692][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.694][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.697][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.704][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:18.706][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:18.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.707][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.709][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:18.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:18.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.713][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:18.715][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:18.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.717][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.719][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:18.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:18.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.723][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:18.724][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:18.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.727][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.728][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:18.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:18.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.732][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:18.734][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:18.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.736][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.737][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:18.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:18.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.741][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:18.742][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:18.744][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.745][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.746][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:18.747][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.749][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.750][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:18.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.754][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:18.755][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:18.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.757][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.759][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:18.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:18.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.764][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:18.765][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:18.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.767][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.768][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:18.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:18.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.781][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:18.783][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:18.784][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.785][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.787][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:18.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:18.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.791][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:18.792][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:18.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.794][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.795][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:18.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:18.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.799][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:18.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:18.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.803][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:18.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:18.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:18.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:18.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.820][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:18.846][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-11-17 01:15:18.848][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.853][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.859][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:18.864][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:18.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:18.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:18.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:18.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:18.876][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:18.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:18.879][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-11-17 01:15:18.880][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-17 01:15:18.882][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-17 01:15:18.887][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-11-17 01:15:18.889][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-17 01:15:18.890][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-17 01:15:18.891][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-17 01:15:18.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:18.894][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:18.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:18.903][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:18.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:18.906][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:18.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:18.911][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.912][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.922][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:18.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:18.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.930][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:18.931][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:18.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.933][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.935][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:18.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:18.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.940][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:18.942][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:18.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.944][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.946][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:18.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:18.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.951][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:18.952][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:18.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.955][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.957][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:18.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:18.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.960][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:18.961][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:18.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.963][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.964][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:18.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:18.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.968][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:18.969][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:18.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.971][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.972][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:18.973][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.974][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.975][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:18.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:18.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.980][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:18.981][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:18.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.983][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.985][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:18.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:18.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.991][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:18.992][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:18.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:18.995][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:18.996][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:18.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:18.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.002][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:19.003][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:19.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.006][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.008][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:19.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:19.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.012][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:19.013][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:19.015][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.016][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.017][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:19.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:19.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.038][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.049][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.075][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:19.085][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-11-17 01:15:19.086][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.092][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.098][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:19.104][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:19.105][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:19.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:19.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:19.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:19.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:19.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:19.120][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-11-17 01:15:19.122][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-17 01:15:19.124][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-17 01:15:19.128][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-11-17 01:15:19.130][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-17 01:15:19.132][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-17 01:15:19.134][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-17 01:15:19.137][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:19.138][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:19.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:19.149][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:19.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:19.152][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:19.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:19.157][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.159][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.162][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.170][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:19.171][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:19.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.174][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.176][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:19.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:19.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.182][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:19.184][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:19.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.187][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.189][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:19.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:19.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.194][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:19.196][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:19.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.198][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.200][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:19.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:19.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.206][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:19.207][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:19.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.210][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.212][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:19.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:19.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.218][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:19.220][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:19.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.222][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.234][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:19.236][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.239][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.241][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:19.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.248][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:19.249][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:19.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.252][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.254][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:19.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:19.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.260][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:19.261][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:19.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.264][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.266][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:19.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:19.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.273][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:19.275][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:19.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.278][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.279][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:19.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:19.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.285][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:19.287][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:19.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.289][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.291][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:19.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:19.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.297][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.303][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.314][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.348][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:19.353][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-11-17 01:15:19.355][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.360][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.364][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:19.367][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:19.369][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:19.370][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:19.378][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:19.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:19.381][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:19.383][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[2025-11-17 01:15:19.384][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-11-17 01:15:19.393][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-17 01:15:19.395][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-17 01:15:19.399][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-11-17 01:15:19.400][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-17 01:15:19.401][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-17 01:15:19.403][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-17 01:15:19.405][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:19.406][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:19.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:19.414][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:19.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:19.417][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:19.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:19.420][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.422][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.424][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.432][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:19.433][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:19.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.435][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.437][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:19.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:19.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.442][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:19.443][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:19.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.445][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.446][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:19.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:19.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.449][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:19.450][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:19.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.452][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.453][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:19.454][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:19.455][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.456][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.458][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:19.459][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:19.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.461][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.463][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:19.464][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.467][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.468][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:19.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.471][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:19.472][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:19.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.474][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.475][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:19.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:19.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.479][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:19.480][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:19.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.482][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.483][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:19.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:19.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.487][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:19.488][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:19.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.490][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.491][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:19.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:19.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.495][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:19.496][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:19.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.498][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.499][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.505][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.521][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:19.556][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-11-17 01:15:19.557][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.560][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.565][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:19.568][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:19.570][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:19.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:19.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:19.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:19.580][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:19.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:19.582][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-11-17 01:15:19.583][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-17 01:15:19.585][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-17 01:15:19.589][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-11-17 01:15:19.590][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-17 01:15:19.592][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-17 01:15:19.593][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-17 01:15:19.595][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:19.596][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:19.597][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:19.604][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:19.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:19.607][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:19.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:19.610][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.611][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.612][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.617][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:19.618][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:19.619][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.620][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.622][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:19.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:19.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.627][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:19.628][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:19.629][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.630][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.631][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:19.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:19.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.635][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:19.636][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:19.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.637][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.638][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:19.639][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:19.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.641][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.642][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:19.648][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:19.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.650][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.651][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:19.653][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.655][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.656][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:19.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.660][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:19.661][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:19.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.662][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:19.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:19.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.668][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:19.669][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:19.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.671][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.673][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:19.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:19.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.679][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:19.680][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:19.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.683][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.684][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:19.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:19.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.690][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:19.691][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:19.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.693][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.708][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:19.741][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-11-17 01:15:19.743][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.746][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.751][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:19.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:19.758][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:19.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:19.767][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:19.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:19.770][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:19.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:19.773][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-11-17 01:15:19.774][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-17 01:15:19.785][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-17 01:15:19.789][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-11-17 01:15:19.791][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-17 01:15:19.793][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-17 01:15:19.794][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-17 01:15:19.796][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:19.796][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:19.798][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:19.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:19.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:19.808][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:19.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:19.812][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.813][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.816][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.823][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:19.824][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:19.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.826][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.828][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:19.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:19.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.832][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:19.833][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:19.834][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.835][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.837][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:19.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:19.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.841][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:19.842][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:19.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.844][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.846][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:19.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:19.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.852][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:19.853][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:19.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.856][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.857][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:19.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:19.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.862][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:19.864][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:19.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.866][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.868][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:19.869][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.870][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.870][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.872][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:19.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.877][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:19.879][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:19.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.881][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.883][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:19.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:19.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.887][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:19.889][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:19.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.891][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.893][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:19.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:19.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.897][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:19.899][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:19.900][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.901][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.903][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:19.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:19.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.908][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:19.909][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:19.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.911][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.912][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:19.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:19.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.926][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.932][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.944][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:19.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:19.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:19.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:19.982][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-11-17 01:15:19.983][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.989][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:19.995][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:19.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:19.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:20.001][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:20.002][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:20.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:20.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:20.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:20.015][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:20.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:20.018][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-11-17 01:15:20.020][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-17 01:15:20.021][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-17 01:15:20.025][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-11-17 01:15:20.027][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-17 01:15:20.029][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-17 01:15:20.030][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-17 01:15:20.033][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:20.034][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:20.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:20.044][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:20.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:20.047][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:20.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:20.051][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.053][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.055][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.062][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:20.064][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:20.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.066][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.067][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:20.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:20.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.072][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:20.074][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:20.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.076][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.078][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:20.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:20.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.092][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:20.093][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:20.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.095][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.097][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:20.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:20.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.102][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:20.104][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:20.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.106][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.108][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:20.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:20.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.114][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:20.115][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:20.116][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.118][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.119][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:20.120][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.121][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.123][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:20.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.127][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:20.128][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:20.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.130][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.131][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:20.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:20.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.135][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:20.135][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:20.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.137][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.138][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:20.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:20.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.142][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:20.143][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:20.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.145][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.146][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:20.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:20.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.149][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:20.150][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:20.151][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.152][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.153][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:20.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:20.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.161][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.169][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.190][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:20.206][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-11-17 01:15:20.208][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.214][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.219][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:20.223][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:20.224][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:20.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:20.232][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:20.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:20.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:20.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:20.237][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-11-17 01:15:20.238][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-17 01:15:20.239][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-17 01:15:20.244][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-11-17 01:15:20.246][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-17 01:15:20.248][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-17 01:15:20.250][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-17 01:15:20.252][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:20.253][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:20.255][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:20.261][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:20.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:20.264][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:20.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:20.268][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.269][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.272][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.278][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:20.280][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:20.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.282][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.283][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:20.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:20.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.288][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:20.290][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:20.291][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.292][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.294][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:20.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:20.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.298][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:20.300][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:20.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.302][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.304][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:20.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:20.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.309][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:20.310][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:20.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.312][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.313][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:20.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:20.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.317][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:20.318][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:20.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.321][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.322][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:20.323][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.324][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.325][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.327][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:20.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.332][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:20.333][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:20.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.336][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.338][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:20.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:20.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.350][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:20.352][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:20.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.356][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.358][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:20.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:20.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.363][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:20.365][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:20.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.366][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.368][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:20.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:20.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.372][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:20.374][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:20.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.376][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.377][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:20.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:20.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.397][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:20.428][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-11-17 01:15:20.429][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.433][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.439][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:20.443][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:20.444][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:20.445][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:20.452][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:20.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:20.453][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:20.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:20.455][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-11-17 01:15:20.456][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-17 01:15:20.458][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-17 01:15:20.462][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-11-17 01:15:20.463][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-17 01:15:20.465][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-17 01:15:20.466][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-17 01:15:20.467][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:20.468][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:20.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:20.476][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:20.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:20.488][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:20.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:20.494][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.496][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.498][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.505][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:20.506][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:20.507][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.508][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.509][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:20.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:20.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.514][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:20.515][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:20.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.517][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.518][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:20.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:20.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.524][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:20.525][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:20.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.527][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.529][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:20.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:20.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.534][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:20.536][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:20.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.538][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.540][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:20.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:20.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.545][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:20.546][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:20.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.548][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.550][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:20.551][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.552][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.553][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.555][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:20.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.559][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:20.560][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:20.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.562][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.564][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:20.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:20.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.568][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:20.570][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:20.571][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.572][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.573][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:20.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:20.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.578][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:20.579][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:20.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.581][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.583][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:20.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:20.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.587][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:20.589][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:20.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.590][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.592][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:20.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:20.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.595][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.599][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.646][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:20.656][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-11-17 01:15:20.657][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.661][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.665][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:20.668][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:20.669][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:20.670][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:20.677][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:20.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:20.679][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:20.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:20.681][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-11-17 01:15:20.682][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-17 01:15:20.683][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-17 01:15:20.688][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-11-17 01:15:20.689][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-17 01:15:20.690][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-17 01:15:20.692][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-17 01:15:20.693][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:20.694][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:20.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:20.702][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:20.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:20.705][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:20.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:20.710][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.711][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.713][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.720][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:20.722][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:20.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.724][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.726][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:20.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:20.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.730][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:20.731][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:20.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.733][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.734][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:20.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:20.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.737][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:20.738][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:20.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.740][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.741][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:20.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:20.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.745][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:20.746][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:20.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.747][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.754][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:20.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:20.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.759][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:20.760][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:20.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.762][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.763][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:20.764][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.765][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.766][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.767][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:20.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.771][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:20.772][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:20.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.773][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.774][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:20.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:20.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.778][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:20.779][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:20.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.781][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.782][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:20.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:20.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.787][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:20.788][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:20.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.791][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.792][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:20.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:20.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.796][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:20.797][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:20.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.798][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.800][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:20.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:20.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.803][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.824][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.828][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:20.838][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-11-17 01:15:20.839][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.842][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.846][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:20.849][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:20.850][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:20.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:20.863][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:20.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:20.866][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:20.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:20.869][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-11-17 01:15:20.870][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-17 01:15:20.872][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-17 01:15:20.877][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-11-17 01:15:20.878][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-17 01:15:20.880][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-17 01:15:20.882][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-17 01:15:20.884][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:20.885][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:20.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:20.892][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:20.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:20.894][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:20.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:20.897][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.898][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.900][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.904][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:20.905][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:20.906][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.907][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.908][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:20.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:20.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.912][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:20.913][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:20.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.914][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.916][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:20.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:20.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.919][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:20.920][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:20.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.922][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.923][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:20.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:20.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.926][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:20.927][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:20.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.929][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.930][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:20.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:20.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.934][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:20.935][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:20.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.936][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.937][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:20.938][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.940][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.941][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:20.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:20.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.945][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:20.946][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:20.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.947][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.949][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:20.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:20.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.952][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:20.953][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:20.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.955][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.956][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:20.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:20.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.960][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:20.961][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:20.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.962][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.963][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:20.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:20.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.973][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:20.974][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:20.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.977][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.979][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:20.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:20.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:20.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:20.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:20.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:20.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:20.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:21.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:21.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:21.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:21.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:21.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:21.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:21.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.012][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:21.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:21.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:21.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:21.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:21.019][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-11-17 01:15:21.020][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.025][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.030][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:21.034][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:21.035][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:21.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:21.042][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:21.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:21.045][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:21.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:21.048][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-11-17 01:15:21.049][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-17 01:15:21.051][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-17 01:15:21.055][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-11-17 01:15:21.057][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-17 01:15:21.058][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-17 01:15:21.060][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-17 01:15:21.061][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:21.062][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:21.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:21.070][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:21.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:21.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:21.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:21.076][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:21.077][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:21.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.079][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:21.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:21.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.085][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:21.086][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:21.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.088][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.090][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:21.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:21.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.103][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:21.105][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:21.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.107][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.109][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:21.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:21.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.114][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:21.115][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:21.116][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.117][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.118][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:21.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:21.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.123][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:21.124][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:21.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.126][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.128][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:21.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:21.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.131][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:21.132][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:21.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.134][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.135][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:21.136][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.138][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.139][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:21.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.143][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:21.144][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:21.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.145][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.147][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:21.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:21.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.150][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:21.151][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:21.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.153][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.154][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:21.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:21.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.158][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:21.159][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:21.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.160][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.162][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:21.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:21.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.165][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:21.166][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:21.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.168][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.170][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:21.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:21.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:21.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:21.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.177][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:21.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:21.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:21.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:21.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.185][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:21.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:21.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.190][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:21.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:21.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:21.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:21.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:21.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:21.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:21.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:21.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:21.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:21.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:21.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:21.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:21.227][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-11-17 01:15:21.228][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.233][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.239][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-17 01:15:21.268][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-17 01:15:21.271][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:21.274][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-17 01:15:21.275][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-17 01:15:21.279][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:21.281][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:21.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:21.290][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:21.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:21.292][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:21.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:21.294][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.298][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.302][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:21.307][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:21.308][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:21.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:21.317][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:21.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:21.320][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:21.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:21.323][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.328][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.332][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.337][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.343][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:21.348][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:21.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:21.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:21.357][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:21.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:21.366][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:21.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:21.369][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.374][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.379][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.384][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.389][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:21.393][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:21.394][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:21.395][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:21.402][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:21.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:21.405][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:21.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:21.408][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.413][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.417][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.421][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.425][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:21.429][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:21.429][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:21.430][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:21.436][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:21.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:21.438][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:21.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:21.441][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.447][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.451][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:21.456][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:21.457][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:21.458][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:21.464][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:21.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:21.467][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:21.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:21.469][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.474][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.478][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:21.484][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:21.485][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:21.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:21.493][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:21.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:21.503][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:21.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:21.506][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.512][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.517][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:21.521][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:21.521][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:21.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:21.528][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:21.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:21.531][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:21.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:21.534][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.538][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.543][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:21.547][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:21.548][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:21.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:21.555][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:21.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:21.557][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:21.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:21.559][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.564][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.569][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:21.572][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:21.573][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:21.574][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:21.580][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:21.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:21.581][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:21.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:21.583][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.587][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.591][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:21.595][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:21.596][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:21.597][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:21.603][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:21.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:21.606][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:21.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:21.609][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.614][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.618][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:21.622][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:21.623][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:21.624][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:21.639][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:21.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:21.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:21.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:21.644][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.649][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.654][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:21.658][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:21.659][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:21.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:21.666][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:21.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:21.669][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:21.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:21.672][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.677][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.681][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:21.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:21.686][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:21.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:21.692][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:21.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:21.694][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:21.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:21.696][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.700][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.705][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:21.709][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:21.710][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:21.711][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:21.717][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:21.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:21.719][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:21.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:21.721][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.731][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:21.735][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:21.736][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:21.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:21.743][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:21.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:21.745][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:21.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:21.748][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.752][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.756][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:21.768][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:21.769][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:21.770][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:21.777][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:21.778][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:21.779][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:21.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:21.781][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.785][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.791][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:21.796][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:21.798][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:21.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:21.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:21.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:21.807][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:21.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:21.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.812][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.816][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:21.819][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:21.820][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:21.821][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:21.826][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:21.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:21.829][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:21.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:21.831][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.843][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:21.846][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:21.847][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:21.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:21.854][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:21.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:21.857][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:21.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:21.859][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.864][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.869][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:21.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:21.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:21.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.907][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:21.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:21.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:21.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:21.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:21.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:21.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:21.919][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:21.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:21.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:21.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-17 01:15:21.952][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-17 01:15:21.955][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:21.958][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-11-17 01:15:21.959][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-17 01:15:21.962][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-17 01:15:21.965][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:21.968][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-11-17 01:15:21.969][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-17 01:15:21.972][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:21.973][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:21.974][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:21.981][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:21.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:21.983][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:21.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:21.985][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-11-17 01:15:21.986][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-17 01:15:21.988][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-17 01:15:21.993][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-11-17 01:15:21.995][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-17 01:15:21.997][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-17 01:15:21.999][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-17 01:15:22.001][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:22.001][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:22.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:22.009][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:22.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:22.011][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:22.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:22.015][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:22.017][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:22.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.018][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:22.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:22.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.024][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:22.024][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:22.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.032][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.034][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:22.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:22.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.038][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:22.039][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:22.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.040][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.042][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:22.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:22.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.045][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:22.046][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:22.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.048][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.049][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:22.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:22.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.053][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:22.053][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:22.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.055][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.056][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:22.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:22.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.060][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:22.061][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:22.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.062][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.063][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:22.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:22.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.067][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:22.068][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:22.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.070][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.071][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:22.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:22.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.074][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.075][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.077][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.078][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.081][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:22.082][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:22.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.084][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.085][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:22.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:22.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.089][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:22.090][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:22.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.091][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.093][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:22.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:22.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.097][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:22.098][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:22.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.101][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.102][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:22.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:22.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.108][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:22.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:22.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:22.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:22.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:22.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:22.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.122][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:22.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:22.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:22.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:22.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:22.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:22.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:22.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:22.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.148][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:22.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:22.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:22.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:22.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:22.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:22.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:22.160][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-11-17 01:15:22.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.171][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:22.174][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:22.175][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:22.176][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:22.182][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:22.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:22.184][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:22.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:22.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.193][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:22.198][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:22.199][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:22.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:22.206][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:22.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:22.208][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:22.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:22.210][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-11-17 01:15:22.211][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-17 01:15:22.212][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-17 01:15:22.218][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-11-17 01:15:22.219][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-17 01:15:22.220][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-17 01:15:22.221][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-17 01:15:22.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:22.224][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:22.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:22.232][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:22.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:22.234][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:22.235][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.TRACE[2025-11-17 01:15:22.237][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:22.239][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:22.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.241][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:22.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:22.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.247][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:22.248][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:22.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.250][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.252][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:22.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:22.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.257][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:22.258][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:22.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.261][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.262][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:22.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:22.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.274][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:22.275][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:22.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.277][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.279][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:22.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:22.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.284][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:22.286][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:22.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.288][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.289][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:22.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:22.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.293][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:22.294][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:22.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.296][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.297][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:22.298][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:22.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.300][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.301][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:22.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:22.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.305][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.307][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.309][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.310][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.314][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:22.315][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:22.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.317][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.318][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:22.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:22.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.324][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:22.325][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:22.327][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.328][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.329][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:22.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:22.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.333][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:22.334][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:22.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.336][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.337][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:22.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:22.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.341][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:22.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:22.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.344][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:22.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:22.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:22.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:22.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.353][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:22.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:22.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:22.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:22.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:22.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:22.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:22.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:22.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.374][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:22.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:22.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:22.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:22.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:22.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:22.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:22.390][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-11-17 01:15:22.391][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.395][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-17 01:15:22.430][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-17 01:15:22.432][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:22.435][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-17 01:15:22.436][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-17 01:15:22.438][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:22.439][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:22.440][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:22.446][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:22.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:22.448][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:22.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:22.451][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.455][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.460][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:22.465][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:22.466][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:22.466][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:22.473][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:22.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:22.474][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:22.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:22.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.480][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.494][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:22.498][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:22.499][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:22.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:22.508][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:22.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:22.510][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:22.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:22.513][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.525][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.531][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.536][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.540][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:22.545][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:22.546][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:22.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:22.553][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:22.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:22.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:22.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:22.558][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.563][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.568][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.576][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:22.581][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:22.582][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:22.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:22.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:22.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:22.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:22.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:22.593][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.600][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:22.603][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:22.604][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:22.606][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:22.614][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:22.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:22.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:22.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:22.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.627][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:22.630][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:22.631][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:22.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:22.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:22.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:22.642][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:22.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:22.644][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:22.670][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:22.671][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:22.672][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:22.679][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:22.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:22.680][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:22.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:22.683][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.687][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.692][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:22.697][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:22.698][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:22.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:22.707][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:22.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:22.710][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:22.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:22.713][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.718][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.723][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:22.729][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:22.730][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:22.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:22.738][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:22.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:22.740][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:22.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:22.742][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:22.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:22.757][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:22.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:22.766][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:22.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:22.769][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:22.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:22.771][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.775][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.779][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:22.784][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:22.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:22.787][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:22.801][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:22.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:22.804][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:22.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:22.807][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.815][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:22.820][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:22.820][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:22.821][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:22.829][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:22.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:22.832][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:22.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:22.834][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.838][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.842][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:22.848][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:22.849][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:22.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:22.858][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:22.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:22.862][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:22.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:22.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.868][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.872][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:22.875][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:22.876][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:22.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:22.884][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:22.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:22.887][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:22.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:22.890][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:22.906][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:22.907][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:22.908][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:22.915][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:22.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:22.918][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:22.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:22.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.931][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:22.945][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:22.946][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:22.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:22.955][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:22.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:22.958][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:22.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:22.961][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:22.974][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:22.974][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:22.975][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:22.982][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:22.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:22.985][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:22.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:22.987][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.991][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:22.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:22.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:22.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:23.002][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:23.003][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:23.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:23.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:23.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:23.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:23.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:23.017][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:23.031][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:23.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:23.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:23.040][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:23.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:23.042][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:23.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:23.045][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.055][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-17 01:15:23.092][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-17 01:15:23.095][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:23.098][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-17 01:15:23.099][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-17 01:15:23.104][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:23.105][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:23.107][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:23.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:23.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:23.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:23.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:23.120][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:23.135][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:23.136][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:23.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:23.144][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:23.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:23.146][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:23.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:23.148][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.153][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.158][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:23.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:23.169][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:23.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:23.177][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:23.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:23.179][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:23.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:23.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.191][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:23.206][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:23.207][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:23.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:23.214][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:23.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:23.216][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:23.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:23.219][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.237][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:23.251][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:23.252][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:23.253][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:23.260][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:23.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:23.263][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:23.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:23.266][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.272][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.276][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:23.281][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:23.282][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:23.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:23.291][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:23.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:23.294][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:23.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:23.297][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.301][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.305][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:23.309][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:23.311][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:23.312][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:23.319][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:23.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:23.322][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:23.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:23.325][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.329][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.335][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:23.340][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:23.341][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:23.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:23.348][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:23.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:23.350][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:23.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:23.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.358][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.541][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:23.547][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:23.548][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:23.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:23.556][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:23.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:23.559][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:23.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:23.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:23.576][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:23.577][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:23.577][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:23.585][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:23.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:23.587][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:23.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:23.590][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.599][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:23.604][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:23.605][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:23.606][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:23.613][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:23.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:23.615][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:23.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:23.617][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.621][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.627][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:23.631][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:23.632][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:23.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:23.639][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:23.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:23.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:23.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:23.643][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.650][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:23.654][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:23.655][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:23.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:23.662][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:23.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:23.665][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:23.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:23.668][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.672][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.677][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:23.681][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:23.682][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:23.682][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:23.690][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:23.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:23.693][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:23.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:23.696][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.701][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.705][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:23.709][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:23.709][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:23.710][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:23.716][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:23.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:23.718][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:23.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:23.720][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.724][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.730][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:23.735][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:23.736][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:23.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:23.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:23.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:23.746][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:23.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:23.748][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:23.762][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:23.763][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:23.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:23.772][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:23.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:23.776][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:23.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:23.779][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.791][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:23.797][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:23.798][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:23.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:23.807][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:23.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:23.810][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:23.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:23.812][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.818][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:23.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:23.830][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:23.831][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:23.840][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:23.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:23.843][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:23.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:23.846][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.851][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.856][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:23.861][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:23.862][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:23.864][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:23.871][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:23.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:23.874][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:23.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:23.877][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.882][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.886][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:23.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.912][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-17 01:15:23.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-17 01:15:23.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-17 01:15:23.929][biodb::testThat]
biodb.INFO [2025-11-17 01:15:23.931][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-11-17 01:15:23.932][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-17 01:15:23.933][biodb::testThat]
biodb.TRACE[2025-11-17 01:15:23.937][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-17 01:15:23.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-17 01:15:23.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.941][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:23.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:23.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.945][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:23.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:23.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.951][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:23.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:23.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:23.956][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:23.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:23.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:23.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:23.966][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:23.968][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:23.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:23.981][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:23.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:23.984][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:23.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-17 01:15:23.988][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-17 01:15:23.991][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:23.995][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-17 01:15:23.996][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-17 01:15:24.000][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:24.000][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:24.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:24.007][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:24.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:24.009][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:24.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:24.011][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.017][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.021][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-17 01:15:24.026][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-17 01:15:24.029][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:24.031][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-17 01:15:24.033][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-17 01:15:24.036][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:24.037][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:24.038][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:24.044][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:24.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:24.046][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:24.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:24.048][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.053][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.057][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:24.061][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:24.062][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:24.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:24.069][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:24.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:24.072][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:24.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:24.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.083][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:24.088][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-17 01:15:24.090][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:24.091][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:24.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:24.098][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:24.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:24.100][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:24.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:24.103][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.107][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.111][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:24.112][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-17 01:15:24.113][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-17 01:15:24.114][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-17 01:15:24.115][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:24.116][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.118][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.119][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.120][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.121][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.123][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.124][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:24.125][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:24.126][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.127][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.128][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.130][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.130][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-17 01:15:24.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.136][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.156][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-11-17 01:15:24.157][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:24.158][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:24.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:24.166][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:24.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:24.168][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:24.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:24.170][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.177][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:24.178][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-17 01:15:24.179][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-17 01:15:24.180][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-17 01:15:24.181][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:24.181][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.182][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.184][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.185][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.186][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.188][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.188][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:24.189][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:24.190][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.191][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.193][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.194][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-17 01:15:24.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.198][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.202][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.207][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-17 01:15:24.208][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:24.210][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:24.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:24.218][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:24.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:24.220][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:24.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:24.222][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.230][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:24.230][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-17 01:15:24.231][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-17 01:15:24.232][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-17 01:15:24.233][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:24.234][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.235][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.237][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.238][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.239][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.241][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.243][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:24.244][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:24.245][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.247][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.250][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.251][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-17 01:15:24.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.259][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.264][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.269][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-11-17 01:15:24.270][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-17 01:15:24.272][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-17 01:15:24.285][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:24.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:24.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.291][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:24.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:24.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.296][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:24.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:24.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:24.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:24.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:24.364][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:24.364][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:24.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:24.372][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:24.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:24.375][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:24.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-17 01:15:24.380][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-17 01:15:24.384][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:24.386][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-11-17 01:15:24.388][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-17 01:15:24.390][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-17 01:15:24.393][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:24.395][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-11-17 01:15:24.396][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-17 01:15:24.399][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:24.400][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:24.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:24.406][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:24.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:24.408][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:24.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:24.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:24.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:24.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.416][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:24.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:24.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.420][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:24.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:24.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:24.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:24.426][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:24.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:24.434][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:24.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:24.436][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:24.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:24.439][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:24.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:24.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.444][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:24.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:24.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.448][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:24.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:24.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:24.452][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:24.453][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:24.454][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:24.461][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:24.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:24.464][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:24.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:24.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:24.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:24.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.472][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:24.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:24.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:24.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:24.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:24.509][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-17 01:15:24.537][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:24.539][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:24.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:24.547][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:24.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:24.549][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:24.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:24.551][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.555][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.560][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:24.561][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-17 01:15:24.563][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-17 01:15:24.564][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-17 01:15:24.565][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:24.567][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.568][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.570][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.571][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.572][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.573][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.574][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:24.575][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:24.576][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.577][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.578][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.579][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.579][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-17 01:15:24.581][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.586][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.589][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.594][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-11-17 01:15:24.595][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:24.597][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:24.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:24.604][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:24.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:24.606][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:24.607][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[2025-11-17 01:15:24.620][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.656][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:24.658][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-17 01:15:24.659][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-17 01:15:24.660][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-17 01:15:24.662][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:24.663][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.665][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.667][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.668][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.669][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.671][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.672][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:24.681][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:24.682][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.683][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.685][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.686][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-17 01:15:24.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.697][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.708][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-17 01:15:24.709][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:24.710][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:24.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:24.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:24.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:24.723][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:24.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:24.725][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.734][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:24.736][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-17 01:15:24.737][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-17 01:15:24.738][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-17 01:15:24.739][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:24.740][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.742][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.743][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.744][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.746][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.747][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.749][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.750][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:24.751][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:24.752][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.753][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.756][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.757][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-17 01:15:24.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.763][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.772][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-11-17 01:15:24.773][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-17 01:15:24.773][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-17 01:15:24.783][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-17 01:15:24.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-17 01:15:24.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-17 01:15:24.796][biodb::testThat]
biodb.INFO [2025-11-17 01:15:24.797][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-11-17 01:15:24.799][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-17 01:15:24.800][biodb::testThat]
biodb.TRACE[2025-11-17 01:15:24.805][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-17 01:15:24.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-17 01:15:24.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.810][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.815][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.820][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.825][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:24.832][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:24.833][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:24.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:24.841][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:24.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:24.843][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:24.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-17 01:15:24.848][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-17 01:15:24.851][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:24.853][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-17 01:15:24.854][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-17 01:15:24.856][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:24.857][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:24.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:24.865][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:24.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:24.868][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:24.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:24.870][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.875][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.880][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-17 01:15:24.885][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-17 01:15:24.888][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:24.890][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-17 01:15:24.891][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-17 01:15:24.894][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:24.895][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:24.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:24.904][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:24.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:24.907][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:24.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:24.910][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.920][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:24.924][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:24.925][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:24.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:24.933][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:24.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:24.936][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:24.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:24.939][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.944][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.948][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:24.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:24.953][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-17 01:15:24.955][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:24.955][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:24.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:24.963][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:24.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:24.965][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:24.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:24.968][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.971][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.975][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:24.976][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-17 01:15:24.977][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-17 01:15:24.978][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-17 01:15:24.979][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:24.981][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.982][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.984][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.985][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.986][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.987][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.988][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:24.989][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:24.990][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.991][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.993][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:24.995][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-17 01:15:24.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:24.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:24.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.000][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.003][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.008][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-11-17 01:15:25.009][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:25.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:25.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:25.017][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:25.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:25.019][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:25.020][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[2025-11-17 01:15:25.021][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.025][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.028][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.030][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-17 01:15:25.031][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-17 01:15:25.032][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-17 01:15:25.033][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.034][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.035][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.037][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.038][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.039][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.041][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.042][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.042][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.044][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.045][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.046][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.048][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.049][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-17 01:15:25.050][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.054][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.059][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.062][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-17 01:15:25.063][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:25.064][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:25.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:25.070][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:25.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:25.072][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:25.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:25.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.079][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.083][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.084][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-17 01:15:25.085][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-17 01:15:25.086][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-17 01:15:25.087][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.094][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.095][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.097][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.098][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.100][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.102][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.103][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.105][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.106][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.107][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.110][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.111][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-17 01:15:25.113][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.117][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.122][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.127][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-11-17 01:15:25.128][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-17 01:15:25.129][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-17 01:15:25.141][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.147][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.152][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.156][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:25.163][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:25.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:25.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:25.171][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:25.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:25.173][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:25.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-17 01:15:25.177][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-17 01:15:25.180][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:25.181][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-11-17 01:15:25.182][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-17 01:15:25.185][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-17 01:15:25.187][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:25.190][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-11-17 01:15:25.191][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-17 01:15:25.195][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:25.196][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:25.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:25.204][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:25.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:25.207][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:25.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:25.210][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.215][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.219][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:25.223][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:25.224][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:25.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:25.231][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:25.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:25.234][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:25.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:25.237][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.241][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.244][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:25.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:25.249][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:25.250][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:25.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:25.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:25.259][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:25.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:25.262][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.266][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.271][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:25.275][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-17 01:15:25.277][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:25.278][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:25.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:25.286][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:25.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:25.289][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:25.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:25.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.298][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.303][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.304][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-17 01:15:25.305][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-17 01:15:25.306][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-17 01:15:25.307][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.308][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.309][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.310][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.311][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.312][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.314][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.316][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.317][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.318][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.319][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.321][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.322][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-17 01:15:25.323][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.328][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.333][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.338][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-11-17 01:15:25.339][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:25.340][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:25.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:25.348][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:25.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:25.350][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:25.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:25.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.356][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.359][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.360][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-17 01:15:25.361][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-17 01:15:25.362][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-17 01:15:25.363][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.364][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.366][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.368][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.369][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.370][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.372][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.374][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.375][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.376][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.378][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.380][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.381][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-17 01:15:25.382][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.385][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.389][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.392][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-17 01:15:25.393][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:25.394][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:25.395][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:25.401][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:25.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:25.403][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:25.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:25.406][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.416][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.417][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-17 01:15:25.419][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-17 01:15:25.420][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-17 01:15:25.421][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.423][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.424][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.427][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.428][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.430][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.432][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.433][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.434][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.436][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.437][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.439][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.440][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-17 01:15:25.441][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.450][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.454][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-11-17 01:15:25.455][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-17 01:15:25.456][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-17 01:15:25.467][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-17 01:15:25.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-17 01:15:25.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-17 01:15:25.478][biodb::testThat]
biodb.INFO [2025-11-17 01:15:25.479][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-11-17 01:15:25.481][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-17 01:15:25.488][biodb::testThat]
biodb.TRACE[2025-11-17 01:15:25.493][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-17 01:15:25.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-17 01:15:25.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.498][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:25.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:25.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.502][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:25.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:25.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.506][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:25.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:25.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.509][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:25.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:25.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:25.519][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:25.520][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:25.521][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:25.527][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:25.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:25.529][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:25.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-17 01:15:25.533][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-17 01:15:25.537][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:25.540][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-17 01:15:25.541][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-17 01:15:25.544][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:25.545][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:25.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:25.554][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:25.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:25.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:25.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:25.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:25.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:25.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.563][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:25.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:25.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.569][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:25.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:25.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-17 01:15:25.574][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-17 01:15:25.576][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:25.578][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-17 01:15:25.579][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-17 01:15:25.581][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:25.582][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:25.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:25.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:25.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:25.592][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:25.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:25.595][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:25.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:25.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.599][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:25.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:25.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.603][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:25.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:25.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:25.606][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:25.607][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:25.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:25.615][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:25.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:25.618][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:25.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:25.621][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:25.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:25.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.627][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:25.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:25.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:25.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:25.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:25.636][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-17 01:15:25.638][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:25.639][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:25.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:25.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:25.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:25.651][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:25.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:25.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.659][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.663][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.664][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-17 01:15:25.665][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-17 01:15:25.666][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-17 01:15:25.667][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.668][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.670][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.671][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.672][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.674][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.675][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.677][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.678][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.679][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.680][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.682][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.684][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.685][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-17 01:15:25.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.691][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.696][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.702][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-11-17 01:15:25.703][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:25.704][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:25.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:25.710][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:25.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:25.713][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:25.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:25.715][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.725][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.727][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-17 01:15:25.728][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-17 01:15:25.729][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-17 01:15:25.730][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.732][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.733][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.734][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.736][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.737][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.738][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.740][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.741][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.742][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.744][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.745][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.748][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.749][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-17 01:15:25.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.753][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.757][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.761][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-17 01:15:25.762][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:25.762][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:25.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:25.772][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:25.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:25.774][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:25.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:25.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.785][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.786][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-17 01:15:25.787][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-17 01:15:25.789][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-17 01:15:25.790][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.790][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.791][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.793][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.794][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.795][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.797][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.798][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.799][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:25.800][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.801][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.802][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.803][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-17 01:15:25.804][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.809][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:25.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.818][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-11-17 01:15:25.819][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-17 01:15:25.820][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-17 01:15:25.848][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.858][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.863][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:25.873][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:25.874][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:25.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:25.882][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:25.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:25.884][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:25.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-17 01:15:25.893][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-17 01:15:25.896][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:25.897][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-11-17 01:15:25.898][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-17 01:15:25.901][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-17 01:15:25.904][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:25.906][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-11-17 01:15:25.907][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-17 01:15:25.909][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:25.910][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:25.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:25.917][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:25.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:25.919][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:25.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:25.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.924][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:25.935][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:25.936][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:25.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:25.943][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:25.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:25.946][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:25.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:25.949][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.953][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:25.963][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:25.965][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:25.965][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:25.971][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:25.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:25.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:25.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:25.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.980][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:25.984][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:25.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:25.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:25.988][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-17 01:15:25.990][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:25.990][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:25.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:25.997][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:25.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:25.999][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:25.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:26.000][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.004][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.007][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:26.008][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-17 01:15:26.009][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-17 01:15:26.010][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-17 01:15:26.010][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:26.011][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.012][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.014][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.015][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.016][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.017][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.018][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:26.019][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:26.020][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.021][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.022][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.023][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-17 01:15:26.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.035][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-11-17 01:15:26.036][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:26.037][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:26.038][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:26.044][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:26.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:26.046][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:26.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:26.049][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.053][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.058][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:26.060][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-17 01:15:26.061][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-17 01:15:26.062][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-17 01:15:26.063][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:26.064][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.066][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.068][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.068][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.069][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.071][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.073][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:26.074][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:26.075][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.077][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.079][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.081][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-17 01:15:26.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.086][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.096][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-17 01:15:26.098][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:26.099][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:26.100][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:26.108][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:26.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:26.111][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:26.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:26.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.119][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.125][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:26.127][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-17 01:15:26.128][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-17 01:15:26.129][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-17 01:15:26.131][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:26.132][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.133][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.135][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.136][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.138][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.140][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.142][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:26.143][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-17 01:15:26.145][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.146][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.149][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.150][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-17 01:15:26.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.161][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.166][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-11-17 01:15:26.167][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-17 01:15:26.169][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-17 01:15:26.196][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-17 01:15:26.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-17 01:15:26.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-17 01:15:26.205][biodb::testThat]
biodb.INFO [2025-11-17 01:15:26.206][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-11-17 01:15:26.207][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-17 01:15:26.208][biodb::testThat]
biodb.DEBUG[2025-11-17 01:15:26.210][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-11-17 01:15:26.211][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-17 01:15:26.213][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-17 01:15:26.215][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-11-17 01:15:26.216][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-17 01:15:26.218][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-17 01:15:26.219][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-17 01:15:26.221][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:26.222][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:26.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:26.231][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:26.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:26.234][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:26.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:26.238][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.239][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.241][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.247][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:26.248][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:26.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.251][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.252][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:26.253][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:26.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.256][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.257][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:26.259][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:26.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.261][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.263][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:26.264][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:26.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.267][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.268][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:26.270][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:26.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.272][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.273][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:26.274][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:26.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.276][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.278][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:26.287][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:26.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.289][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.290][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:26.291][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:26.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.292][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.294][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:26.294][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:26.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.296][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.297][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:26.298][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:26.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.299][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.311][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:26.335][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-11-17 01:15:26.335][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-11-17 01:15:26.346][biodb::testThat]
biodb.INFO [2025-11-17 01:15:26.347][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-11-17 01:15:26.348][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-17 01:15:26.349][biodb::testThat]
biodb.DEBUG[2025-11-17 01:15:26.359][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-11-17 01:15:26.361][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-11-17 01:15:26.362][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-11-17 01:15:26.365][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-17 01:15:26.367][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-11-17 01:15:26.370][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-11-17 01:15:26.375][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-11-17 01:15:26.377][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-17 01:15:26.378][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-11-17 01:15:26.379][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-11-17 01:15:26.381][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:26.382][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:26.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:26.388][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:26.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:26.390][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:26.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:26.394][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.395][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.397][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.403][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:26.404][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:26.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.407][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.408][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:26.409][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:26.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.411][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.413][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:26.414][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:26.416][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.417][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.419][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:26.421][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:26.422][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.423][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.425][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:26.426][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:26.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.428][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.430][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:26.431][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:26.433][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.434][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.436][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:26.437][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:26.439][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.440][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.441][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:26.442][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:26.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.444][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.446][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:26.447][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:26.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.449][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.450][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:26.451][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:26.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.452][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.454][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.460][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.471][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:26.488][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:26.489][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:26.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:26.497][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:26.499][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:26.500][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:26.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:26.504][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.505][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.506][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.507][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.513][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:26.515][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:26.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.517][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.518][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:26.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:26.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.523][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:26.524][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:26.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.526][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.527][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:26.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:26.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.532][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:26.532][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:26.534][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.535][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.536][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:26.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:26.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.540][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:26.542][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:26.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.544][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.545][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:26.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:26.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.550][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:26.552][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:26.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.553][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.555][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:26.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:26.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.560][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:26.561][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:26.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.563][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.565][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:26.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:26.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.569][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:26.570][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:26.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.573][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:26.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:26.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.581][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:26.582][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:26.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.585][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.587][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:26.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:26.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.592][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:26.594][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:26.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.596][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.597][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:26.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:26.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.601][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:26.602][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:26.604][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.605][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.606][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:26.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:26.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.610][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.622][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:26.642][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:26.643][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:26.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:26.650][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:26.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:26.653][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:26.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:26.657][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.658][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.666][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.672][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:26.673][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:26.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.676][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.677][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:26.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:26.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.682][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:26.684][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:26.685][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.686][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.688][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:26.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:26.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.693][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:26.694][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:26.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.695][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.696][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:26.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:26.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.709][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:26.710][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:26.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.713][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.714][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:26.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:26.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.719][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:26.720][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:26.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.722][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.724][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:26.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:26.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.729][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:26.730][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:26.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.733][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.734][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:26.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:26.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.737][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:26.738][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:26.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.740][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.741][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:26.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:26.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.745][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:26.746][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:26.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.748][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.750][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:26.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:26.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.754][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:26.755][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:26.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.757][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.758][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:26.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:26.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.762][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:26.763][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:26.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.765][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.767][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:26.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:26.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.771][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.782][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:26.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:26.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:26.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:26.841][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-11-17 01:15:26.842][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-11-17 01:15:26.843][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-11-17 01:15:26.862][biodb::testThat]
biodb.INFO [2025-11-17 01:15:26.864][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-11-17 01:15:26.865][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-17 01:15:26.866][biodb::testThat]
biodb.INFO [2025-11-17 01:15:26.896][biodb::testThat]
biodb.INFO [2025-11-17 01:15:26.898][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-11-17 01:15:26.899][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-17 01:15:26.899][biodb::testThat]
biodb.INFO [2025-11-17 01:15:26.911][biodb::testThat]
biodb.INFO [2025-11-17 01:15:26.912][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-11-17 01:15:26.913][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-17 01:15:26.915][biodb::testThat]
sched.DEBUG[2025-11-17 01:15:26.918][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-11-17 01:15:26.922][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:26.928][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-11-17 01:15:26.929][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-11-17 01:15:26.947][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:26.949][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:26.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.951][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:26.951][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:26.952][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:26.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:26.954][ef$get] fields variable is a list.
biodb.INFO [2025-11-17 01:15:26.955][biodb::testThat]
biodb.INFO [2025-11-17 01:15:26.956][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-11-17 01:15:26.957][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-17 01:15:26.958][biodb::testThat]
biodb.ERROR[2025-11-17 01:15:26.974][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-11-17 01:15:26.993][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-11-17 01:15:27.007][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-17 01:15:27.009][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-17 01:15:27.010][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-17 01:15:27.011][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:27.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:27.013][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.014][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-17 01:15:27.026][biodb::testContext]
biodb.INFO [2025-11-17 01:15:27.027][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-17 01:15:27.028][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-11-17 01:15:27.029][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-17 01:15:27.030][biodb::testContext]
biodb.INFO [2025-11-17 01:15:27.032][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.19.0.
biodb.DEBUG[2025-11-17 01:15:27.034][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-11-17 01:15:27.038][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-17 01:15:27.039][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-17 01:15:27.040][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-17 01:15:27.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.044][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-17 01:15:27.045][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-17 01:15:27.046][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.050][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-17 01:15:27.051][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-17 01:15:27.059][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.063][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-17 01:15:27.064][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-17 01:15:27.065][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-17 01:15:27.067][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.070][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-17 01:15:27.071][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-17 01:15:27.073][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-17 01:15:27.074][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.076][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[2025-11-17 01:15:27.077][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-17 01:15:27.078][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-17 01:15:27.079][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.082][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-17 01:15:27.083][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-17 01:15:27.085][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-17 01:15:27.086][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.088][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[2025-11-17 01:15:27.089][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-17 01:15:27.090][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-17 01:15:27.091][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.094][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-17 01:15:27.095][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-17 01:15:27.095][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-17 01:15:27.096][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.098][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[2025-11-17 01:15:27.099][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-17 01:15:27.100][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-17 01:15:27.101][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-17 01:15:27.103][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-17 01:15:27.104][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-17 01:15:27.105][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-17 01:15:27.105][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.109][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-17 01:15:27.110][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-17 01:15:27.111][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.115][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-17 01:15:27.116][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-17 01:15:27.117][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.121][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-17 01:15:27.122][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-17 01:15:27.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.126][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-17 01:15:27.127][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-17 01:15:27.128][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-17 01:15:27.129][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.133][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-17 01:15:27.134][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-17 01:15:27.165][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-17 01:15:27.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.170][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-17 01:15:27.172][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-17 01:15:27.173][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-17 01:15:27.174][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.178][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-17 01:15:27.207][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:27.208][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-11-17 01:15:27.210][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:27.211][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-17 01:15:27.211][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:27.213][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-17 01:15:27.214][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:27.215][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-17 01:15:27.216][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-17 01:15:27.217][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-17 01:15:27.218][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:27.219][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-17 01:15:27.220][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-17 01:15:27.221][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:27.222][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:27.223][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-17 01:15:27.223][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-17 01:15:27.223][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-17 01:15:27.223][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-17 01:15:27.223][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-17 01:15:27.224][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-17 01:15:27.225][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:27.226][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:27.228][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-17 01:15:27.229][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:27.230][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:27.232][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-17 01:15:27.233][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:27.234][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-17 01:15:27.235][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-17 01:15:27.236][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:27.237][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:27.238][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-17 01:15:27.240][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:27.240][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-17 01:15:27.241][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:27.242][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-17 01:15:27.244][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:27.245][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-17 01:15:27.246][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:27.247][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-17 01:15:27.248][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-17 01:15:27.249][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-17 01:15:27.250][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:27.251][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-17 01:15:27.251][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-17 01:15:27.252][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:27.253][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:27.255][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-17 01:15:27.255][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-17 01:15:27.255][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-17 01:15:27.255][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-17 01:15:27.255][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-17 01:15:27.256][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-17 01:15:27.257][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:27.259][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:27.260][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-17 01:15:27.261][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:27.262][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:27.264][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-17 01:15:27.265][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:27.266][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-17 01:15:27.267][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-17 01:15:27.267][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:27.268][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:27.270][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-17 01:15:27.273][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:27.274][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-11-17 01:15:27.275][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:27.276][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-17 01:15:27.278][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:27.279][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-17 01:15:27.280][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:27.282][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-17 01:15:27.283][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-17 01:15:27.284][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-17 01:15:27.286][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:27.287][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-17 01:15:27.287][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-17 01:15:27.288][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:27.289][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:27.290][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:27.291][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-17 01:15:27.292][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:27.293][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:27.293][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-17 01:15:27.294][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:27.295][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:27.296][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-17 01:15:27.297][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:27.298][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-17 01:15:27.299][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-17 01:15:27.299][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:27.300][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:27.302][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-17 01:15:27.303][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:27.304][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-17 01:15:27.305][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:27.307][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-17 01:15:27.308][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:27.309][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-17 01:15:27.310][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:27.311][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-17 01:15:27.313][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-17 01:15:27.314][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-17 01:15:27.315][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:27.317][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-17 01:15:27.318][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-17 01:15:27.319][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:27.321][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:27.322][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:27.323][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-17 01:15:27.324][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:27.325][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:27.326][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-17 01:15:27.327][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:27.328][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:27.328][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-17 01:15:27.330][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:27.331][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-17 01:15:27.332][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-17 01:15:27.334][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:27.334][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:27.336][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-17 01:15:27.336][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.342][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.350][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.358][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".
biodb.DEBUG[2025-11-17 01:15:27.359][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.368][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.377][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[2025-11-17 01:15:27.378][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.382][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[2025-11-17 01:15:27.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.387][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.406][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[2025-11-17 01:15:27.407][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.413][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-17 01:15:27.415][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-17 01:15:27.416][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-17 01:15:27.417][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-17 01:15:27.419][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-17 01:15:27.420][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-17 01:15:27.422][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-17 01:15:27.424][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-17 01:15:27.433][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-17 01:15:27.435][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-17 01:15:27.436][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-17 01:15:27.438][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-17 01:15:27.440][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-17 01:15:27.441][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-17 01:15:27.443][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-17 01:15:27.445][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-17 01:15:27.446][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-17 01:15:27.447][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-17 01:15:27.448][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-17 01:15:27.449][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-17 01:15:27.451][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-17 01:15:27.452][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-17 01:15:27.453][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-17 01:15:27.454][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-17 01:15:27.455][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-17 01:15:27.456][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-17 01:15:27.458][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-17 01:15:27.459][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-17 01:15:27.460][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-17 01:15:27.461][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-17 01:15:27.463][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-17 01:15:27.464][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-17 01:15:27.465][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-17 01:15:27.466][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-17 01:15:27.467][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-17 01:15:27.469][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-17 01:15:27.471][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-17 01:15:27.473][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-17 01:15:27.475][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-17 01:15:27.476][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-17 01:15:27.478][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-17 01:15:27.479][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-17 01:15:27.481][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-17 01:15:27.483][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-17 01:15:27.484][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-17 01:15:27.486][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-17 01:15:27.488][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-17 01:15:27.490][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-17 01:15:27.491][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-17 01:15:27.493][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-17 01:15:27.495][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-17 01:15:27.497][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-17 01:15:27.498][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-17 01:15:27.500][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-17 01:15:27.502][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-17 01:15:27.503][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-17 01:15:27.505][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-17 01:15:27.507][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-17 01:15:27.509][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-17 01:15:27.510][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-17 01:15:27.512][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-17 01:15:27.514][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-17 01:15:27.515][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-17 01:15:27.517][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-17 01:15:27.519][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-17 01:15:27.520][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-17 01:15:27.521][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-17 01:15:27.522][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-17 01:15:27.524][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-17 01:15:27.526][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-17 01:15:27.528][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-17 01:15:27.529][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-17 01:15:27.531][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-17 01:15:27.533][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-17 01:15:27.535][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-17 01:15:27.537][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-17 01:15:27.539][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-17 01:15:27.541][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-17 01:15:27.542][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-17 01:15:27.543][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-17 01:15:27.545][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-17 01:15:27.546][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-17 01:15:27.547][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-17 01:15:27.548][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-17 01:15:27.550][initialize] This is biodb version 1.19.0.
biodb.DEBUG[2025-11-17 01:15:27.551][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-17 01:15:27.552][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.554][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.555][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.DEBUG[2025-11-17 01:15:27.557][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:27.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:27.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:27.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:27.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.571][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:27.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:27.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.576][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[2025-11-17 01:15:27.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:27.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:27.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:27.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:27.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:27.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:27.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.594][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[2025-11-17 01:15:27.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:27.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:27.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.602][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:27.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:27.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:27.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:27.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:27.619][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:27.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:27.627][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:27.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:27.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:27.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:27.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:27.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.644][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.647][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[2025-11-17 01:15:27.648][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:27.649][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:27.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.653][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[2025-11-17 01:15:27.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:27.655][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:27.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.659][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[2025-11-17 01:15:27.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:27.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:27.661][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:27.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.664][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[2025-11-17 01:15:27.666][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-17 01:15:27.669][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-17 01:15:27.671][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:27.673][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-17 01:15:27.674][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:27.676][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-17 01:15:27.677][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:27.678][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-17 01:15:27.679][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:27.680][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-17 01:15:27.681][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-17 01:15:27.682][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-17 01:15:27.682][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:27.684][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-17 01:15:27.685][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-17 01:15:27.686][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-17 01:15:27.686][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-17 01:15:27.686][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-17 01:15:27.686][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-17 01:15:27.686][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-17 01:15:27.686][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-17 01:15:27.686][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-17 01:15:27.686][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-17 01:15:27.686][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-17 01:15:27.686][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-17 01:15:27.686][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-17 01:15:27.687][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:27.689][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-17 01:15:27.689][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-17 01:15:27.689][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-17 01:15:27.690][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-17 01:15:27.691][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:27.693][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:27.694][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-17 01:15:27.695][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:27.696][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:27.697][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-17 01:15:27.698][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-17 01:15:27.698][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-17 01:15:27.699][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-17 01:15:27.700][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-17 01:15:27.701][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:27.702][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-17 01:15:27.702][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-17 01:15:27.704][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-17 01:15:27.706][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-17 01:15:27.708][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-17 01:15:27.710][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-17 01:15:27.712][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-17 01:15:27.713][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-17 01:15:27.716][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-17 01:15:27.722][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-17 01:15:27.724][biodb::testThat]
biodb.INFO [2025-11-17 01:15:27.725][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-11-17 01:15:27.727][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-17 01:15:27.728][biodb::testThat]
sched.DEBUG[2025-11-17 01:15:27.732][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-17 01:15:27.734][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:27.739][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-17 01:15:27.740][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-17 01:15:27.745][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 [2025-11-17 01:15:27.749][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:27.752][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-11-17 01:15:27.754][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-17 01:15:27.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:27.758][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:27.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:27.766][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.768][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.769][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".
sched.DEBUG[2025-11-17 01:15:27.771][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 [2025-11-17 01:15:27.773][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:27.776][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-11-17 01:15:27.777][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-17 01:15:27.779][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:27.780][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:27.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:27.787][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.790][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.817][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:27.819][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:27.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:27.827][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.830][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.831][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".
sched.DEBUG[2025-11-17 01:15:27.836][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 [2025-11-17 01:15:27.838][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:27.841][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-11-17 01:15:27.843][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-17 01:15:27.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:27.846][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:27.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:27.854][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.856][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.857][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".
sched.DEBUG[2025-11-17 01:15:27.859][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 [2025-11-17 01:15:27.861][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:27.863][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-11-17 01:15:27.864][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-17 01:15:27.866][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:27.867][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:27.868][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:27.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.876][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:27.878][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:27.879][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:27.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:27.886][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.888][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-17 01:15:27.893][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 [2025-11-17 01:15:27.895][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:27.897][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-11-17 01:15:27.899][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-17 01:15:27.901][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:27.902][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:27.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:27.909][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.912][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-17 01:15:27.914][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 [2025-11-17 01:15:27.918][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:27.920][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-11-17 01:15:27.921][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-17 01:15:27.922][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:27.923][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:27.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:27.931][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.934][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.935][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".
sched.DEBUG[2025-11-17 01:15:27.937][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 [2025-11-17 01:15:27.940][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:27.943][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-11-17 01:15:27.945][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-17 01:15:27.947][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:27.948][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:27.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:27.955][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.958][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:27.959][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.INFO [2025-11-17 01:15:27.970][biodb::testThat]
biodb.INFO [2025-11-17 01:15:27.971][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-11-17 01:15:27.973][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-17 01:15:27.974][biodb::testThat]
sched.DEBUG[2025-11-17 01:15:27.979][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 [2025-11-17 01:15:27.982][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:27.985][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-11-17 01:15:27.986][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-17 01:15:27.988][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:27.989][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:27.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:27.996][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:27.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:27.999][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-17 01:15:28.006][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 [2025-11-17 01:15:28.009][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:28.012][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-11-17 01:15:28.014][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-17 01:15:28.016][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:28.017][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:28.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:28.026][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.028][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-17 01:15:28.036][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-17 01:15:28.037][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-17 01:15:28.039][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-17 01:15:28.039][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:28.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:28.041][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.044][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-17 01:15:28.050][biodb::testContext]
biodb.INFO [2025-11-17 01:15:28.051][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-17 01:15:28.053][biodb::testContext] Test context - Test web services
biodb.INFO [2025-11-17 01:15:28.054][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-17 01:15:28.056][biodb::testContext]
biodb.INFO [2025-11-17 01:15:28.058][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.19.0.
biodb.DEBUG[2025-11-17 01:15:28.060][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-11-17 01:15:28.065][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-17 01:15:28.067][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-17 01:15:28.068][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-17 01:15:28.069][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.073][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-17 01:15:28.074][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-17 01:15:28.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.076][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[2025-11-17 01:15:28.077][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-17 01:15:28.078][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-17 01:15:28.079][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.082][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-17 01:15:28.083][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-17 01:15:28.084][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-17 01:15:28.085][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.087][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[2025-11-17 01:15:28.088][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-17 01:15:28.089][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-17 01:15:28.090][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-17 01:15:28.091][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.095][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-17 01:15:28.096][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-17 01:15:28.097][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.100][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-17 01:15:28.101][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-17 01:15:28.102][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-17 01:15:28.103][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.107][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-17 01:15:28.109][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-17 01:15:28.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.114][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-17 01:15:28.115][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-17 01:15:28.117][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-17 01:15:28.118][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.121][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-17 01:15:28.122][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-17 01:15:28.123][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-17 01:15:28.125][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-17 01:15:28.126][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-17 01:15:28.126][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-17 01:15:28.127][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.130][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-17 01:15:28.131][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-17 01:15:28.132][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.134][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-17 01:15:28.135][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-17 01:15:28.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.138][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-17 01:15:28.139][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-17 01:15:28.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.142][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-17 01:15:28.143][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-17 01:15:28.144][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-17 01:15:28.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.148][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-17 01:15:28.149][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-17 01:15:28.182][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-17 01:15:28.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.186][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-17 01:15:28.187][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-17 01:15:28.188][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-17 01:15:28.189][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.191][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[2025-11-17 01:15:28.192][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-17 01:15:28.193][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:28.195][self$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[2025-11-17 01:15:28.196][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.198][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-17 01:15:28.199][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.201][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-17 01:15:28.202][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:28.204][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-17 01:15:28.205][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-17 01:15:28.206][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-17 01:15:28.207][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.209][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-17 01:15:28.210][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-17 01:15:28.211][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:28.213][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.213][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-17 01:15:28.213][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-17 01:15:28.213][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-17 01:15:28.213][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-17 01:15:28.213][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-17 01:15:28.214][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-17 01:15:28.215][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:28.216][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:28.217][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-17 01:15:28.218][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:28.219][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:28.220][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-17 01:15:28.221][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:28.221][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-17 01:15:28.222][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-17 01:15:28.223][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:28.224][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:28.225][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-17 01:15:28.227][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:28.228][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-17 01:15:28.229][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.238][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-17 01:15:28.240][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.241][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-17 01:15:28.242][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:28.243][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-17 01:15:28.244][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-17 01:15:28.245][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-17 01:15:28.245][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.246][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-17 01:15:28.247][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-17 01:15:28.249][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:28.250][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.251][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-17 01:15:28.251][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-17 01:15:28.251][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-17 01:15:28.251][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-17 01:15:28.251][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-17 01:15:28.252][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-17 01:15:28.253][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:28.254][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:28.256][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-17 01:15:28.257][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:28.258][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:28.259][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-17 01:15:28.260][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:28.261][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-17 01:15:28.262][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-17 01:15:28.263][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:28.264][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:28.265][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-17 01:15:28.266][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.267][self$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[2025-11-17 01:15:28.268][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.269][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-17 01:15:28.269][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.270][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-17 01:15:28.271][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:28.272][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-17 01:15:28.273][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-17 01:15:28.274][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-17 01:15:28.274][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:28.275][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-17 01:15:28.276][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-17 01:15:28.277][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:28.278][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.279][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:28.279][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-17 01:15:28.280][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:28.281][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:28.282][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-17 01:15:28.283][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:28.284][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:28.285][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-17 01:15:28.287][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:28.288][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-17 01:15:28.289][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-17 01:15:28.290][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:28.292][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:28.293][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-17 01:15:28.294][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.295][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-17 01:15:28.296][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.297][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-17 01:15:28.298][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.298][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-17 01:15:28.299][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:28.300][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-17 01:15:28.301][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-17 01:15:28.302][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-17 01:15:28.303][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:28.304][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-17 01:15:28.304][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-17 01:15:28.305][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:28.306][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.307][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:28.308][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-17 01:15:28.309][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:28.309][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:28.310][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-17 01:15:28.311][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:28.312][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:28.313][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-17 01:15:28.313][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:28.314][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-17 01:15:28.315][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-17 01:15:28.316][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:28.317][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:28.318][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-17 01:15:28.319][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.322][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.323][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.DEBUG[2025-11-17 01:15:28.324][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.328][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.329][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.332][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.336][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.340][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.344][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.345][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.347][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.DEBUG[2025-11-17 01:15:28.349][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.365][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.385][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-17 01:15:28.387][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-17 01:15:28.388][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-17 01:15:28.389][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-17 01:15:28.390][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-17 01:15:28.391][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-17 01:15:28.392][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-17 01:15:28.394][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-17 01:15:28.395][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-17 01:15:28.396][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-17 01:15:28.397][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-17 01:15:28.398][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-17 01:15:28.400][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-17 01:15:28.401][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-17 01:15:28.402][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-17 01:15:28.403][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-17 01:15:28.404][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-17 01:15:28.406][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-17 01:15:28.407][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-17 01:15:28.408][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-17 01:15:28.409][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-17 01:15:28.410][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-17 01:15:28.412][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-17 01:15:28.413][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-17 01:15:28.414][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-17 01:15:28.415][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-17 01:15:28.417][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-17 01:15:28.418][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-17 01:15:28.419][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-17 01:15:28.420][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-17 01:15:28.421][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-17 01:15:28.422][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-17 01:15:28.424][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-17 01:15:28.425][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-17 01:15:28.426][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-17 01:15:28.427][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-17 01:15:28.428][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-17 01:15:28.430][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-17 01:15:28.431][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-17 01:15:28.432][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-17 01:15:28.433][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-17 01:15:28.434][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-17 01:15:28.435][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-17 01:15:28.437][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-17 01:15:28.438][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-17 01:15:28.439][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-17 01:15:28.440][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-17 01:15:28.441][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-17 01:15:28.443][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-17 01:15:28.444][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-17 01:15:28.445][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-17 01:15:28.446][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-17 01:15:28.447][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-17 01:15:28.448][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-17 01:15:28.450][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-17 01:15:28.451][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-17 01:15:28.452][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-17 01:15:28.453][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-17 01:15:28.455][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-17 01:15:28.456][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-17 01:15:28.457][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-17 01:15:28.458][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-17 01:15:28.459][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-17 01:15:28.460][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-17 01:15:28.462][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-17 01:15:28.463][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-17 01:15:28.464][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-17 01:15:28.465][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-17 01:15:28.466][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-17 01:15:28.468][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-17 01:15:28.469][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-17 01:15:28.470][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-17 01:15:28.471][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-17 01:15:28.473][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-17 01:15:28.474][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-17 01:15:28.475][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-17 01:15:28.476][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-17 01:15:28.477][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-17 01:15:28.479][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-17 01:15:28.480][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-17 01:15:28.481][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-17 01:15:28.482][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-17 01:15:28.483][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-17 01:15:28.484][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-17 01:15:28.486][initialize] This is biodb version 1.19.0.
biodb.DEBUG[2025-11-17 01:15:28.487][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-17 01:15:28.488][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.489][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.491][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:28.493][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:28.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.496][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.DEBUG[2025-11-17 01:15:28.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:28.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:28.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:28.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:28.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:28.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:28.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.513][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[2025-11-17 01:15:28.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:28.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:28.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.527][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[2025-11-17 01:15:28.528][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:28.530][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:28.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.535][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[2025-11-17 01:15:28.536][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:28.538][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:28.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.542][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:28.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:28.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.548][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:28.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:28.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.554][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:28.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:28.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:28.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:28.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.566][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:28.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:28.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:28.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:28.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.578][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[2025-11-17 01:15:28.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:28.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:28.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.583][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[2025-11-17 01:15:28.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:28.586][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:28.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.589][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[2025-11-17 01:15:28.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:28.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:28.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.594][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[2025-11-17 01:15:28.596][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-17 01:15:28.598][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-17 01:15:28.599][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:28.600][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-17 01:15:28.601][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.602][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-17 01:15:28.603][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.604][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-17 01:15:28.604][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.605][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-17 01:15:28.606][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-17 01:15:28.607][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-17 01:15:28.608][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.609][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-17 01:15:28.609][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-17 01:15:28.610][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-17 01:15:28.610][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-17 01:15:28.610][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-17 01:15:28.610][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-17 01:15:28.610][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-17 01:15:28.610][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-17 01:15:28.610][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-17 01:15:28.610][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-17 01:15:28.610][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-17 01:15:28.610][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-17 01:15:28.610][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-17 01:15:28.611][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:28.612][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-17 01:15:28.612][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-17 01:15:28.612][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-17 01:15:28.613][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-17 01:15:28.614][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:28.615][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:28.616][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-17 01:15:28.618][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:28.619][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:28.620][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-17 01:15:28.621][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-17 01:15:28.621][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-17 01:15:28.622][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-17 01:15:28.623][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-17 01:15:28.624][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.624][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-17 01:15:28.624][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-17 01:15:28.626][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-17 01:15:28.627][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-17 01:15:28.629][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-17 01:15:28.631][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-17 01:15:28.633][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-17 01:15:28.635][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-17 01:15:28.639][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-17 01:15:28.643][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-17 01:15:28.645][biodb::testThat]
biodb.INFO [2025-11-17 01:15:28.646][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-11-17 01:15:28.647][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-17 01:15:28.647][biodb::testThat]
sched.DEBUG[2025-11-17 01:15:28.650][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-17 01:15:28.653][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:28.658][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-17 01:15:28.660][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-17 01:15:28.664][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-11-17 01:15:28.667][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:28.669][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-11-17 01:15:28.671][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-11-17 01:15:28.683][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-17 01:15:28.685][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-17 01:15:28.686][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-17 01:15:28.687][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:28.688][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:28.688][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.691][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-17 01:15:28.697][biodb::testContext]
biodb.INFO [2025-11-17 01:15:28.698][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-17 01:15:28.699][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-11-17 01:15:28.699][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-17 01:15:28.700][biodb::testContext]
biodb.INFO [2025-11-17 01:15:28.702][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.19.0.
biodb.DEBUG[2025-11-17 01:15:28.704][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-11-17 01:15:28.708][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-17 01:15:28.709][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-17 01:15:28.710][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-17 01:15:28.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.713][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-17 01:15:28.714][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-17 01:15:28.715][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.718][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-17 01:15:28.718][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-17 01:15:28.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.722][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-17 01:15:28.723][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-17 01:15:28.724][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-17 01:15:28.725][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.727][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-17 01:15:28.729][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-17 01:15:28.730][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-17 01:15:28.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.734][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-17 01:15:28.734][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-17 01:15:28.735][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.738][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-17 01:15:28.739][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-17 01:15:28.740][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-17 01:15:28.741][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.745][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-17 01:15:28.746][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-17 01:15:28.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.751][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-17 01:15:28.752][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-17 01:15:28.753][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-17 01:15:28.753][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.756][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-17 01:15:28.757][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-17 01:15:28.759][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-17 01:15:28.760][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-17 01:15:28.762][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-17 01:15:28.763][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-17 01:15:28.764][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.768][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-17 01:15:28.769][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-17 01:15:28.770][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.772][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-17 01:15:28.773][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-17 01:15:28.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.778][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-17 01:15:28.779][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-17 01:15:28.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.784][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-17 01:15:28.786][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-17 01:15:28.787][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-17 01:15:28.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.791][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-17 01:15:28.792][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-17 01:15:28.818][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-17 01:15:28.820][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.822][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.DEBUG[2025-11-17 01:15:28.824][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-17 01:15:28.825][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-17 01:15:28.827][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-17 01:15:28.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.831][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-17 01:15:28.833][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:28.834][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-11-17 01:15:28.835][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.836][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-17 01:15:28.837][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.838][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-17 01:15:28.839][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:28.840][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-17 01:15:28.841][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-17 01:15:28.842][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-17 01:15:28.843][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.844][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-17 01:15:28.845][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-17 01:15:28.846][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:28.848][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.849][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-17 01:15:28.849][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-17 01:15:28.849][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-17 01:15:28.849][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-17 01:15:28.849][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-17 01:15:28.850][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-17 01:15:28.851][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:28.852][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:28.853][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-17 01:15:28.854][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:28.855][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:28.856][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-17 01:15:28.856][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:28.857][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-17 01:15:28.858][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-17 01:15:28.859][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:28.860][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:28.861][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-17 01:15:28.863][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:28.864][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-17 01:15:28.864][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.865][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-17 01:15:28.866][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.867][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-17 01:15:28.868][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:28.869][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-17 01:15:28.870][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-17 01:15:28.872][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-17 01:15:28.873][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.874][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-17 01:15:28.876][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-17 01:15:28.877][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:28.879][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.880][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-17 01:15:28.880][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-17 01:15:28.880][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-17 01:15:28.880][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-17 01:15:28.880][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-17 01:15:28.881][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-17 01:15:28.883][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:28.884][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:28.885][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-17 01:15:28.886][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:28.888][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:28.889][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-17 01:15:28.897][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:28.898][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-17 01:15:28.899][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-17 01:15:28.900][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:28.900][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:28.901][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-17 01:15:28.903][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.904][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-11-17 01:15:28.904][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.905][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-17 01:15:28.906][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.907][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-17 01:15:28.908][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:28.909][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-17 01:15:28.909][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-17 01:15:28.910][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-17 01:15:28.911][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:28.912][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-17 01:15:28.913][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-17 01:15:28.913][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:28.914][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.915][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:28.916][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-17 01:15:28.917][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:28.917][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:28.918][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-17 01:15:28.919][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:28.920][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:28.921][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-17 01:15:28.921][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:28.922][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-17 01:15:28.923][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-17 01:15:28.924][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:28.925][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:28.926][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-17 01:15:28.927][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.928][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-17 01:15:28.929][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.930][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-17 01:15:28.930][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.931][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-17 01:15:28.932][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:28.933][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-17 01:15:28.934][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-17 01:15:28.935][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-17 01:15:28.935][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:28.936][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-17 01:15:28.937][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-17 01:15:28.938][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:28.939][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:28.940][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:28.940][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-17 01:15:28.941][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:28.942][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:28.943][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-17 01:15:28.944][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:28.944][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:28.945][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-17 01:15:28.946][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:28.947][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-17 01:15:28.948][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-17 01:15:28.948][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:28.949][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-17 01:15:28.950][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-17 01:15:28.951][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.962][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.972][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.978][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.993][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:28.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:28.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:28.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:28.997][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:28.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:29.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:29.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:29.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:29.003][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:29.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:29.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:29.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:29.008][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[2025-11-17 01:15:29.009][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:29.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:29.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:29.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:29.012][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[2025-11-17 01:15:29.014][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:29.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:29.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:29.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:29.017][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[2025-11-17 01:15:29.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:29.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:29.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:29.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:29.021][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[2025-11-17 01:15:29.022][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:29.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:29.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:29.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:29.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:29.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:29.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:29.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:29.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:29.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:29.031][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-17 01:15:29.032][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-17 01:15:29.033][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-17 01:15:29.034][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-17 01:15:29.036][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-17 01:15:29.037][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-17 01:15:29.038][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-17 01:15:29.040][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-17 01:15:29.041][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-17 01:15:29.042][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-17 01:15:29.043][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-17 01:15:29.045][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-17 01:15:29.046][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-17 01:15:29.047][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-17 01:15:29.048][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-17 01:15:29.050][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-17 01:15:29.051][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-17 01:15:29.052][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-17 01:15:29.053][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-17 01:15:29.055][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-17 01:15:29.056][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-17 01:15:29.057][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-17 01:15:29.058][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-17 01:15:29.060][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-17 01:15:29.061][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-17 01:15:29.062][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-17 01:15:29.063][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-17 01:15:29.065][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-17 01:15:29.066][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-17 01:15:29.068][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-17 01:15:29.070][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-17 01:15:29.071][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-17 01:15:29.073][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-17 01:15:29.075][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-17 01:15:29.076][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-17 01:15:29.078][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-17 01:15:29.080][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-17 01:15:29.081][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-17 01:15:29.083][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-17 01:15:29.085][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-17 01:15:29.086][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-17 01:15:29.088][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-17 01:15:29.089][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-17 01:15:29.090][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-17 01:15:29.092][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-17 01:15:29.094][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-17 01:15:29.096][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-17 01:15:29.098][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-17 01:15:29.100][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-17 01:15:29.101][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-17 01:15:29.103][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-17 01:15:29.104][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-17 01:15:29.105][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-17 01:15:29.106][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-17 01:15:29.107][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-17 01:15:29.108][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-17 01:15:29.110][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-17 01:15:29.111][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-17 01:15:29.112][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-17 01:15:29.113][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-17 01:15:29.114][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-17 01:15:29.116][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-17 01:15:29.117][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-17 01:15:29.118][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-17 01:15:29.119][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-17 01:15:29.120][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-17 01:15:29.121][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-17 01:15:29.123][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-17 01:15:29.124][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-17 01:15:29.125][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-17 01:15:29.126][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-17 01:15:29.127][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-17 01:15:29.128][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-17 01:15:29.130][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-17 01:15:29.131][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-17 01:15:29.132][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-17 01:15:29.133][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-17 01:15:29.134][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-17 01:15:29.135][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-17 01:15:29.137][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-17 01:15:29.138][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-17 01:15:29.139][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-17 01:15:29.140][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-17 01:15:29.141][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-17 01:15:29.143][initialize] This is biodb version 1.19.0.
biodb.DEBUG[2025-11-17 01:15:29.144][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-17 01:15:29.145][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:29.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:29.146][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:29.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:29.148][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:29.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:29.149][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:29.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:29.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:29.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:29.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:29.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:29.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:29.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:29.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:29.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:29.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:29.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:29.158][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:29.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:29.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:29.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:29.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:29.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:29.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:29.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:29.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:29.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:29.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:29.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:29.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:29.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:29.171][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:29.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:29.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:29.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:29.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:29.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:29.177][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[2025-11-17 01:15:29.178][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:29.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:29.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:29.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:29.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:29.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:29.183][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[2025-11-17 01:15:29.184][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:29.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:29.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:29.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:29.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:29.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:29.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:29.198][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:29.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:29.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:29.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:29.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:29.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:29.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:29.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:29.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:29.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:29.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:29.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:29.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:29.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:29.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:29.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:29.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:29.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:29.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:29.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:29.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:29.220][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:29.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:29.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:29.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:29.223][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:29.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:29.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:29.226][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:29.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:29.228][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:29.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:29.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:29.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:29.232][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[2025-11-17 01:15:29.232][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:29.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:29.234][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:29.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:29.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:29.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:29.239][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[2025-11-17 01:15:29.240][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:29.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:29.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:29.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:29.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:29.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:29.247][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[2025-11-17 01:15:29.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:29.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:29.249][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:29.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:29.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:29.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:29.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:29.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-17 01:15:29.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:29.255][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:29.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:29.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:29.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:29.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-17 01:15:29.260][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-17 01:15:29.262][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-17 01:15:29.263][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:29.264][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-17 01:15:29.265][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:29.266][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-17 01:15:29.267][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:29.269][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-17 01:15:29.269][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:29.271][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-17 01:15:29.272][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-17 01:15:29.273][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-17 01:15:29.274][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:29.275][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-17 01:15:29.276][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-17 01:15:29.278][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-17 01:15:29.278][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-17 01:15:29.278][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-17 01:15:29.278][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-17 01:15:29.278][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-17 01:15:29.278][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-17 01:15:29.278][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-17 01:15:29.278][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-17 01:15:29.278][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-17 01:15:29.278][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-17 01:15:29.278][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-17 01:15:29.279][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-17 01:15:29.279][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-17 01:15:29.279][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-17 01:15:29.279][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-17 01:15:29.281][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-17 01:15:29.282][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:29.283][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:29.284][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-17 01:15:29.285][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-17 01:15:29.286][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-17 01:15:29.286][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-17 01:15:29.287][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-17 01:15:29.287][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-17 01:15:29.288][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-17 01:15:29.289][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-17 01:15:29.290][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-17 01:15:29.291][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-17 01:15:29.291][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-17 01:15:29.293][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-17 01:15:29.294][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-17 01:15:29.296][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-17 01:15:29.298][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-17 01:15:29.300][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-17 01:15:29.301][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-17 01:15:29.305][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-17 01:15:29.310][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-17 01:15:29.311][biodb::testThat]
biodb.INFO [2025-11-17 01:15:29.312][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-11-17 01:15:29.313][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-17 01:15:29.314][biodb::testThat]
sched.DEBUG[2025-11-17 01:15:29.316][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-17 01:15:29.318][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:29.322][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-17 01:15:29.323][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-17 01:15:29.326][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 [2025-11-17 01:15:29.329][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-17 01:15:29.330][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-11-17 01:15:29.331][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-17 01:15:29.336][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-11-17 01:15:29.343][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-17 01:15:29.345][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-17 01:15:29.353][FUN] Found encoding UTF-8 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-11-17 01:15:29.356][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-17 01:15:29.358][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-17 01:15:29.359][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-17 01:15:29.361][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-17 01:15:29.362][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:29.363][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:29.370][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:29.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:29.372][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:29.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-17 01:15:29.377][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:29.378][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:29.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.380][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:29.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:29.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.385][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:29.386][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:29.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.387][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.389][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-17 01:15:29.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-17 01:15:29.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.392][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:29.393][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:29.394][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.395][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.396][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-17 01:15:29.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-17 01:15:29.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.401][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-17 01:15:29.402][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-17 01:15:29.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.404][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.405][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-17 01:15:29.407][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-17 01:15:29.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.409][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.411][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:29.412][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:29.414][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.415][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.417][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:29.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-17 01:15:29.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.422][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:29.423][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:29.425][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.426][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.428][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-17 01:15:29.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-17 01:15:29.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.434][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:29.435][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:29.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.438][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.440][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:29.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-17 01:15:29.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.444][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:29.446][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:29.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.448][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.450][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-17 01:15:29.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-17 01:15:29.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.455][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:29.456][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:29.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.458][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.459][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-17 01:15:29.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-17 01:15:29.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.463][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:29.464][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:29.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.465][ef$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.467][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-17 01:15:29.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-17 01:15:29.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.471][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:29.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:29.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.474][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:29.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:29.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:29.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:29.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.484][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-17 01:15:29.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-17 01:15:29.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.490][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:29.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:29.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:29.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:29.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:29.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:29.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:29.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:29.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:29.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:29.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-17 01:15:29.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-17 01:15:29.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-17 01:15:29.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-17 01:15:29.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-17 01:15:29.518][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-11-17 01:15:29.523][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-17 01:15:29.525][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-17 01:15:29.526][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-17 01:15:29.527][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-17 01:15:29.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-17 01:15:29.530][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-17 01:15:29.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-17 01:15:29.532][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-17 01:15:29.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ 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 
 17.284   1.023  19.902

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn2.3281.3364.560
ChebiEntry0.2310.0200.322